From 119bdbbe2e7088f39017749097bebe69eda36328 Mon Sep 17 00:00:00 2001 From: Marcel Costa Date: Tue, 28 Nov 2023 10:33:25 +0100 Subject: [PATCH] Inicio del programa --- ONATRY-CIT/app.R | 205 ++++++++++++++++++ Scripts/Human.Codon.Usage | 19 ++ ...MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt | 60 +++++ Scripts/tabla_cai_early_proteins.txt | 17 ++ Scripts/tabla_cai_human_proteins.txt | 55 +++++ Scripts/tabla_cai_late_proteins.txt | 18 ++ Scripts/tabla_cai_viral_proteins.txt | 37 ++++ example.fasta | 36 +++ 8 files changed, 447 insertions(+) create mode 100644 ONATRY-CIT/app.R create mode 100644 Scripts/Human.Codon.Usage create mode 100644 Scripts/pca_HAdV5_EGFP_MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt create mode 100644 Scripts/tabla_cai_early_proteins.txt create mode 100644 Scripts/tabla_cai_human_proteins.txt create mode 100644 Scripts/tabla_cai_late_proteins.txt create mode 100644 Scripts/tabla_cai_viral_proteins.txt create mode 100644 example.fasta diff --git a/ONATRY-CIT/app.R b/ONATRY-CIT/app.R new file mode 100644 index 0000000..7124ec4 --- /dev/null +++ b/ONATRY-CIT/app.R @@ -0,0 +1,205 @@ +library(shiny) +library(coRdon) +library(Biostrings) +library(tidyverse) +library(pcaMethods) +library(ggpubr) + +# Define UI for application that draws a histogram +ui <- fluidPage( + verticalLayout( + titlePanel("ONATRY-CIT"), + wellPanel( + textAreaInput("query", "Text in fasta format", width = "100%", height = "300px"), + actionButton("submit", label = "Submit") + ), + plotOutput("result", width = "1200px", height = "800px") + ) +) + +# Define server logic required to draw a histogram +server <- function(input, output) { + + + process<-eventReactive(input$submit, { + fa=input$query + + fasplit<-strsplit(gsub("^>","",fa), ">")[[1]] + txtQuery<-c() + names<-c() + for (i in 1:length(fasplit)){ + query_split<-strsplit(fasplit[[i]], "\n|\r")[[1]] + names<-c(names, strsplit(query_split[1], " ")[[1]][1]) + txtQuery<-c(txtQuery, paste0(query_split[2:length(query_split)], collapse = "")) + } + names(txtQuery)<-names + + txtQuery<-gsub("\n","",txtQuery) + dnaQuery<-DNAStringSet(txtQuery) + + Query<-codonTable(dnaQuery) + + CodRef<-list( + Ala=c("GCG","GCA","GCT","GCC"), + Cys=c("TGT","TGC"), + Asp=c("GAT","GAC"), + Glu=c("GAG","GAA"), + Phe=c("TTT","TTC"), + Gly=c("GGG","GGA","GGT","GGC"), + His=c("CAT","CAC"), + Ile=c("ATA","ATT","ATC"), + Lys=c("AAG","AAA"), + Leu=c("TTG","TTA","CTG","CTA","CTT","CTC"), + Met=c("ATG"), + Asn=c("AAT","AAC"), + Pro=c("CCG","CCA","CCT","CCC"), + Gln=c("CAG","CAA"), + Arg=c("AGG","AGA","CGG","CGA","CGT","CGC"), + Ser=c("AGT","AGC","TCG","TCA","TCT","TCC"), + Thr=c("ACG","ACA","ACT","ACC"), + Val=c("GTG","GTA","GTT","GTC"), + Trp=c("TGG"), + Tyr=c("TAT","TAC"), + End=c("TGA","TAG","TAA") + ) + + UsedCodons<-unlist(CodRef[sapply(CodRef,length) > 1 & names(CodRef) != "End"]) + + list2data<-function(x, var.column="Names", val.column="Values"){ + names<-c() + for (name in names(x)){ + names<-c(names, rep(name, length(x[[name]]))) + } + df<-data.frame(names, unlist(x), row.names = NULL) + colnames(df)<-c(var.column, val.column) + return(df) + } + + Query_CU<-t(codonCounts(Query)) %>% + as.data.frame() %>% + setNames(names(txtQuery)) %>% + rownames_to_column("codon") %>% + # mutate(across(all_of(names(txtQuery)), function(x) x=1000*x/sum(x))) %>% + merge(list2data(CodRef, "AA","codon")) %>% + group_by(AA) %>% + mutate(across(all_of(names(txtQuery)), function(x) x=x/sum(x))) %>% + ungroup() + + pca_ref<-read.table("../Scripts/pca_HAdV5_EGFP_MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt",sep="\t", dec = ",", header = T) + pca_ref$codon<-gsub(" ","",pca_ref$codon) + pca_tab<-merge(pca_ref, + Query_CU %>% select(-AA) + ) + + + pcares<-pca(pca_tab %>% column_to_rownames("codon") %>% as.matrix %>% t(), + method="svd", nPCs=10) #comando para hacer el PCA + + g_PCA<-pcares@scores %>% + as.data.frame %>% + rownames_to_column("NAME") %>% + add_column("TYPE"=c(rep("Structural", 20),rep("Early",16), rep("References", 6), + rep("Query",length(names(txtQuery))))) %>% + ggplot(aes(PC1,PC2, color=TYPE))+ + geom_point(size=15, alpha=0.25)+ + geom_point(data=function(x){filter(x, TYPE %in% c("References","Query"))},size=2, alpha=0.5)+ + geom_text(aes(label=NAME),show.legend=FALSE)+ + scale_color_manual(values=c("Early"="cornflowerblue","Structural"="darkgrey","References"="brown","Query"="black"))+ + theme_gray(base_size = 15)+ + ggtitle("PCA Codon Usage")+ + theme(aspect.ratio = 1) + + hcu<-read.table("../Scripts/Human.Codon.Usage", header = F, sep=" ") + hcu<-rbind( + hcu[,c("V1","V2")] %>% rename(Codon=V1, Usage=V2), + hcu[,c("V3","V4")] %>% rename(Codon=V3, Usage=V4), + hcu[,c("V5","V6")] %>% rename(Codon=V5, Usage=V6), + hcu[,c("V7","V8")] %>% rename(Codon=V7, Usage=V8) + ) %>% + mutate(Usage=as.numeric(gsub("\\([0-9]*\\)","",Usage))) + + w<-merge( + list2data(CodRef, "AA","Codon"), + hcu + ) %>% + group_by(AA) %>% + mutate(Weight=Usage/max(Usage)) + + Query_codons<-sapply(txtQuery, function(x) substring(x,seq(1,(nchar(x)-2),3), seq(3,nchar(x),3))) + Query_CAI<-do.call(rbind, lapply(names(Query_codons), function(x){ + merge( + data.frame(Position=1:length(Query_codons[[x]]), + Codon=Query_codons[[x]], + Name=x), + w[,c("Codon","AA","Weight")] + ) %>% arrange(Position) + })) + + Query_CAI[Query_CAI$AA %in% c("Met","End","Trp"),"Weight"]<-0 + + #CAI + CAI<-Query_CAI %>% group_by(Name) %>% + summarise(mean=round(mean(Weight),digits = 2)) + lengths<-Query_CAI %>% group_by(Name) %>% summarise(lengths=length(Weight)) + lowess<-Query_CAI %>% group_by(Name) %>% + summarise(Weight=tail(lowess(Weight, f=0.15)$y,1)) + + g_CAI<-ggplot(Query_CAI, aes(Position, Weight, color=Name))+ + geom_line(color=rgb(1,1,1,0.0))+ + geom_smooth(se=F)+ + geom_text(data=data.frame(Position=lengths$lengths+3, + Weight=lowess$Weight, + CAI=CAI$mean, + Name=CAI$Name), + aes(label=CAI), hjust=0, vjust=0.5, show.legend = F)+ + ggtitle("CAI along sequence")+ + theme_gray(base_size = 15) + + AApos3<-sapply(txtQuery, function(x) strsplit(x, "")[[1]][seq(3, nchar(x), 3)]) + GC3<-sapply(AApos3, function(x) 100*length(x[x %in% c("G","C")])/length(x)) + + + table<-rbind( + read.table("../Scripts/tabla_cai_human_proteins.txt",header=TRUE,sep="\t",dec=".") %>% add_column(Type="Human"), + read.table("../Scripts/tabla_cai_early_proteins.txt",header=TRUE,sep="\t",dec=".") %>% add_column(Type="Early"), + read.table("../Scripts/tabla_cai_late_proteins.txt",header=TRUE,sep="\t",dec=".") %>% add_column(Type="Late") + ) + + dtGC3<-data.frame( + Name=c("LGFP", "EGFP","BWT","BHU",names(GC3)), + X.G.C.3.=c(44.8,96.7,70.8,84.9,GC3), + Type=factor(c("Low Expression","High Expression","High Expression","High Expression",rep("Query",length(GC3))), + levels = c("Early","Late","Human","High Expression","Low Expression","Query")) + ) + table$Type<-factor(table$Type, levels=c("Early","Late","Human","High Expression","Low Expression","Query")) + g_GC3<-ggplot(table, aes(`X.G.C.3.`, fill=Type))+ + geom_density(alpha=0.5)+ + geom_density(fill=NA, aes(color=Type))+ + scale_fill_manual(values=c("Early"="grey80","Late"="grey30", "Human"="#FFFF99", + "Low Expression"="red","High Expression"="green","Query"="purple"),drop=F)+ + scale_color_manual(values=c("Early"="grey30","Late"="grey30", "Human"="#FFFF99", + "Low Expression"="red","High Expression"="green","Query"="purple"),drop=F)+ + geom_segment(data=dtGC3, aes(x = X.G.C.3.,xend = X.G.C.3., y=0, yend=0.025, color=Type), linetype=2, linewidth=1, show.legend = F)+ + geom_text(data=dtGC3, aes(x = X.G.C.3., y=0.026, label=Name, color=Type), angle=90, vjust=0.5, hjust=0, size=6, show.legend = F)+ + xlim(0,100)+ + labs(x="%GC3",y="Density")+ + theme_classic(base_size = 15)+ + ggtitle("%GC3")+ + theme(panel.border = element_rect(fill=NA), aspect.ratio = 1) + + ggarrange( + ggarrange(g_PCA, g_GC3), + g_CAI, ncol = 1, heights = c(0.6, 0.4) + ) + }) + + output$result <- renderPlot({ + observeEvent(input$submit, {}) + if(input$query != ""){ + process() + } + }) +} + +# Run the application +shinyApp(ui = ui, server = server) diff --git a/Scripts/Human.Codon.Usage b/Scripts/Human.Codon.Usage new file mode 100644 index 0000000..56b12db --- /dev/null +++ b/Scripts/Human.Codon.Usage @@ -0,0 +1,19 @@ +TTT 17.1(189379) TCT 15.4(171196) TAT 12.0(132715) TGT 10.6(117458) +TTC 19.5(216388) TCC 17.7(196012) TAC 14.6(161579) TGC 12.2(135489) +TTA 7.8(86682) TCA 12.5(139095) TAA 0.5(5404) TGA 0.9(9518) +TTG 12.9(143507) TCG 4.5(50249) TAG 0.4(4328) TGG 12.1(134648) + +CTT 13.3(147569) CCT 17.9(198345) CAT 11.1(123609) CGT 4.5(49921) +CTC 19.2(212802) CCC 20.3(225420) CAC 15.2(168062) CGC 10.5(115976) +CTA 7.2(79488) CCA 17.3(192119) CAA 12.7(140427) CGA 6.2(68859) +CTG 39.4(437308) CCG 7.3(81354) CAG 34.9(387120) CGG 11.7(129331) + +ATT 15.8(175259) ACT 13.3(147134) AAT 17.1(190114) AGT 12.6(139465) +ATC 19.9(220634) ACC 18.4(203602) AAC 18.6(206688) AGC 19.9(220505) +ATA 7.5(82922) ACA 15.1(167136) AAA 25.1(278169) AGA 12.0(133268) +ATG 21.3(236510) ACG 6.0(66200) AAG 31.9(353825) AGG 11.9(131616) + +GTT 10.9(121302) GCT 18.4(204091) GAT 22.3(246943) GGT 10.6(117456) +GTC 14.0(155761) GCC 28.1(311996) GAC 25.1(278549) GGC 22.3(247607) +GTA 7.1(78882) GCA 16.1(178106) GAA 30.4(336665) GGA 16.5(183190) +GTG 27.6(305878) GCG 7.6(84501) GAG 40.7(451726) GGG 16.5(182999) \ No newline at end of file diff --git a/Scripts/pca_HAdV5_EGFP_MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt b/Scripts/pca_HAdV5_EGFP_MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt new file mode 100644 index 0000000..8eeeee7 --- /dev/null +++ b/Scripts/pca_HAdV5_EGFP_MONO_EMM_BH_VCN_APIS_MOD_PDT_ADAPT_Tox.txt @@ -0,0 +1,60 @@ +codon IV2a pol U_exon pTP 52K pIIIa III fiber pVII V X pVI hexon protease DBP 100K 33K IX 22K pVIII E3_12_5K E3_CR1_alpha0 E3_gp19K 10_5K E3_RID_alpha E3_RID_beta E3_14_7K E4_ORF6_7 E4_34K E4_ORF4 E4_ORF3 E4_ORFB E1B55K E1A E1B19K E4_ORF1 GFP_DEopt APIS_BH OPT_BH GFP_opt PH20 Tox + GCG "0,24" "0,26" "0,33" "0,14" "0,4" "0,47" "0,36" "0,05" "0,36" "0,44" "0,45" "0,18" "0,15" "0,07" "0,62" "0,19" "0,35" "0,05" "0,17" "0,37" "0,17" 0 "0,1" "0,29" "0,38" "0,2" "0,25" "0,2" "0,14" "0,36" 0 "0,13" "0,11" "0,29" "0,29" "0,1" 0 "0,57" 0 0 0 "0,32" + GCA "0,18" "0,12" "0,33" "0,08" "0,2" "0,18" "0,2" "0,2" "0,12" "0,09" "0,09" "0,12" "0,11" 0 "0,06" "0,15" "0,41" "0,27" "0,33" "0,05" "0,17" 0 "0,1" 0 "0,13" "0,1" "0,25" 0 0 "0,09" 0 "0,13" "0,28" "0,07" "0,07" "0,1" "0,88" "0,04" "0,04" 0 "0,26" "0,21" + GCT "0,12" "0,06" 0 "0,03" "0,13" "0,1" "0,13" "0,32" "0,09" "0,09" 0 "0,06" "0,31" "0,07" "0,13" "0,12" "0,15" "0,27" "0,22" "0,26" "0,17" 0 "0,6" "0,14" "0,25" "0,2" 0 "0,6" "0,29" "0,36" "0,38" "0,5" "0,33" "0,29" "0,43" "0,5" "0,13" "0,04" "0,22" 0 "0,48" "0,25" + GCC "0,45" "0,56" "0,33" "0,75" "0,27" "0,25" "0,31" "0,43" "0,42" "0,38" "0,45" "0,65" "0,44" "0,86" "0,19" "0,54" "0,09" "0,41" "0,28" "0,32" "0,5" 1 "0,2" "0,57" "0,25" "0,5" "0,5" "0,2" "0,57" "0,18" "0,63" "0,25" "0,28" "0,36" "0,21" "0,3" 0 "0,35" "0,74" 1 "0,26" "0,22" + TGT "0,14" "0,08" 0 "0,29" 0 0 0 1 0 0 0 0 "0,29" "0,5" "0,15" "0,14" 0 0 "0,33" 0 "0,56" "0,5" "0,38" 0 "0,33" "0,2" "0,33" 1 "0,63" "0,75" "0,33" "0,5" "0,52" "0,5" "0,67" 1 1 0 0 0 "0,64" "0,83" + TGC "0,86" "0,92" 0 "0,71" 1 0 1 0 0 0 1 1 "0,71" "0,5" "0,85" "0,86" 1 0 "0,67" 0 "0,44" "0,5" "0,63" 1 "0,67" "0,8" "0,67" 0 "0,38" "0,25" "0,67" "0,5" "0,48" "0,5" "0,33" 0 0 1 1 1 "0,36" "0,17" + GAT "0,31" "0,21" "0,5" "0,31" "0,31" "0,17" "0,23" "0,48" "0,17" "0,47" 0 "0,4" "0,39" "0,4" "0,33" "0,23" "0,17" "0,71" 0 "0,11" "0,5" 0 "0,33" "0,67" 0 "0,6" "0,43" "0,67" "0,89" "0,33" "0,71" "0,57" "0,73" "0,44" "0,86" "0,5" "0,72" "0,36" "0,05" "0,11" "0,67" "0,82" + GAC "0,69" "0,79" "0,5" "0,69" "0,69" "0,83" "0,77" "0,52" "0,83" "0,53" 0 "0,6" "0,61" "0,6" "0,67" "0,78" "0,83" "0,29" 1 "0,89" "0,5" 0 "0,67" "0,33" 1 "0,4" "0,57" "0,33" "0,11" "0,67" "0,29" "0,43" "0,27" "0,56" "0,14" "0,5" "0,28" "0,64" "0,95" "0,89" "0,33" "0,18" + GAG "0,26" "0,66" "0,67" "0,59" "0,95" "0,84" "0,75" "0,26" 1 "0,61" 0 "0,67" "0,35" "0,67" "0,6" "0,68" "0,63" "0,67" "0,68" "0,5" "0,9" 0 "0,4" 0 "0,5" 0 "0,44" "0,6" "0,79" "0,33" "0,67" "0,63" "0,81" "0,63" "0,56" "0,86" "0,5" "0,67" "0,96" "0,94" "0,4" "0,5" + GAA "0,74" "0,34" "0,33" "0,41" "0,05" "0,16" "0,25" "0,74" 0 "0,39" 0 "0,33" "0,65" "0,33" "0,4" "0,32" "0,38" "0,33" "0,32" "0,5" "0,1" 0 "0,6" 0 "0,5" 1 "0,56" "0,4" "0,21" "0,67" "0,33" "0,38" "0,19" "0,38" "0,44" "0,14" "0,5" "0,33" "0,04" "0,06" "0,6" "0,5" + TTT "0,55" "0,46" 1 "0,48" "0,64" "0,42" "0,5" "0,89" "0,5" 1 0 "0,17" "0,6" "0,79" "0,47" "0,56" "0,5" "0,67" "0,25" "0,78" 1 "0,67" "0,63" "0,6" "0,83" "0,63" 1 1 1 "0,5" 1 1 "0,72" 1 "0,9" "0,82" "0,5" "0,25" "0,75" 0 "0,54" "0,67" + TTC "0,45" "0,54" 0 "0,52" "0,36" "0,58" "0,5" "0,11" "0,5" 0 1 "0,83" "0,4" "0,21" "0,53" "0,44" "0,5" "0,33" "0,75" "0,22" 0 "0,33" "0,38" "0,4" "0,17" "0,38" 0 0 0 "0,5" 0 0 "0,28" 0 "0,1" "0,18" "0,5" "0,75" "0,25" 1 "0,46" "0,33" + GGG "0,23" "0,19" 0 "0,22" "0,23" "0,32" "0,27" "0,1" "0,2" "0,1" 0 "0,13" "0,1" "0,33" "0,2" "0,11" 0 "0,33" "0,14" "0,18" 0 "0,4" 0 0 0 0 0 "0,13" "0,14" "0,25" "0,25" "0,4" "0,36" "0,33" "0,43" "0,11" 0 "0,26" 0 "0,14" "0,08" "0,15" + GGA "0,19" "0,29" "0,33" "0,35" "0,19" "0,12" "0,11" "0,35" "0,07" "0,19" "0,27" "0,09" "0,21" "0,08" "0,2" "0,34" "0,67" "0,33" "0,14" "0,32" "0,57" 0 0 "0,75" 1 "0,4" "0,57" "0,38" "0,14" "0,25" "0,38" 0 "0,21" "0,07" 0 0 "0,45" "0,17" "0,35" 0 "0,6" "0,13" + GGT "0,23" "0,16" "0,33" "0,05" "0,04" "0,15" "0,16" "0,19" "0,13" "0,19" "0,09" "0,17" "0,28" "0,17" "0,2" "0,21" "0,17" "0,17" "0,14" "0,14" "0,14" "0,4" "0,67" 0 0 0 "0,29" "0,13" "0,36" "0,5" "0,13" "0,4" "0,21" "0,47" "0,29" "0,67" "0,41" "0,13" 0 0 "0,24" "0,48" + GGC "0,35" "0,35" "0,33" "0,38" "0,54" "0,41" "0,46" "0,35" "0,6" "0,52" "0,64" "0,61" "0,41" "0,42" "0,4" "0,34" "0,17" "0,17" "0,57" "0,36" "0,29" "0,2" "0,33" "0,25" 0 "0,6" "0,14" "0,38" "0,36" 0 "0,25" "0,2" "0,23" "0,13" "0,29" "0,22" "0,14" "0,43" "0,65" "0,86" "0,08" "0,25" + CAT "0,21" "0,16" 0 "0,25" "0,36" "0,3" "0,3" "0,43" 0 "0,5" 0 0 "0,19" 0 "0,19" "0,25" "0,5" 0 "0,5" 0 "0,43" 0 "0,5" "0,33" "0,33" "0,5" 0 "0,67" "0,25" "0,5" "0,33" "0,75" "0,38" "0,27" "0,5" 0 "0,22" "0,75" 0 0 "0,33" "0,82" + CAC "0,79" "0,84" 0 "0,75" "0,64" "0,7" "0,7" "0,57" 1 "0,5" 1 1 "0,81" 1 "0,81" "0,75" "0,5" 0 "0,5" 1 "0,57" 1 "0,5" "0,67" "0,67" "0,5" 1 "0,33" "0,75" "0,5" "0,67" "0,25" "0,62" "0,73" "0,5" 1 "0,78" "0,25" 1 1 "0,67" "0,18" + ATA "0,27" "0,19" "0,5" "0,09" "0,54" "0,36" "0,13" "0,38" "0,17" "0,11" 0 "0,13" "0,26" "0,33" "0,19" "0,17" "0,67" 0 "0,33" "0,21" 0 "0,14" "0,18" "0,13" "0,18" "0,33" "0,13" "0,5" "0,19" "0,4" "0,3" "0,57" "0,24" "0,08" "0,6" "0,33" 0 "0,25" 0 0 "0,48" "0,03" + ATT "0,23" "0,14" "0,5" "0,27" "0,15" "0,21" "0,26" "0,58" "0,5" "0,33" "0,6" "0,38" "0,5" "0,67" "0,25" "0,33" "0,33" 1 0 "0,5" "0,67" "0,71" "0,73" "0,38" "0,36" "0,33" "0,75" "0,25" "0,31" "0,2" "0,6" "0,14" "0,48" "0,5" "0,2" "0,67" "0,92" "0,19" "0,25" 0 "0,35" "0,49" + ATC "0,5" "0,67" 0 "0,64" "0,31" "0,43" "0,61" "0,04" "0,33" "0,56" "0,4" "0,5" "0,24" 0 "0,56" "0,5" 0 0 "0,67" "0,29" "0,33" "0,14" "0,09" "0,5" "0,45" "0,33" "0,13" "0,25" "0,5" "0,4" "0,1" "0,29" "0,29" "0,42" "0,2" 0 "0,08" "0,56" "0,75" 1 "0,16" "0,49" + AAG "0,4" "0,56" "0,8" "0,75" "0,91" "0,71" "0,63" "0,27" "0,67" "0,69" 0 "0,75" "0,61" "0,5" "0,85" "0,61" "0,5" 1 "0,75" 1 "0,33" 0 "0,4" "0,33" 0 "0,25" "0,56" 1 "0,5" "0,5" 1 0 "0,76" 0 "0,78" 0 "0,75" "0,41" 1 "0,95" "0,26" "0,21" + AAA "0,6" "0,44" "0,2" "0,25" "0,09" "0,29" "0,37" "0,73" "0,33" "0,31" 0 "0,25" "0,39" "0,5" "0,15" "0,39" "0,5" 0 "0,25" 0 "0,67" 1 "0,6" "0,67" 0 "0,75" "0,44" 0 "0,5" "0,5" 0 1 "0,24" 1 "0,22" 0 "0,25" "0,59" 0 "0,05" "0,74" "0,79" + TTG "0,1" "0,08" "0,29" "0,14" "0,13" "0,18" "0,25" "0,2" 0 "0,14" "0,13" "0,11" "0,12" "0,12" "0,18" "0,17" "0,05" "0,5" "0,18" "0,07" "0,07" 0 "0,15" "0,2" "0,14" 0 "0,2" "0,29" "0,24" "0,2" "0,47" "0,33" "0,19" "0,26" "0,3" "0,17" 0 "0,24" 0 0 "0,21" "0,31" + TTA 0 "0,02" 0 "0,05" 0 "0,01" 0 "0,03" 0 0 0 0 "0,01" 0 0 "0,01" 0 0 "0,09" 0 "0,13" 0 "0,08" 0 "0,07" "0,18" 0 "0,07" "0,07" 0 "0,05" 0 "0,03" "0,13" "0,04" "0,08" 0 "0,08" 0 0 "0,04" "0,22" + CTG "0,4" "0,29" "0,57" "0,22" "0,65" "0,54" "0,5" "0,06" "0,67" "0,52" "0,38" "0,79" "0,28" "0,29" "0,56" "0,24" "0,63" "0,31" "0,36" "0,29" "0,33" 0 "0,08" "0,1" "0,07" "0,27" "0,2" "0,43" "0,45" "0,4" "0,11" "0,33" "0,46" "0,22" "0,52" "0,42" "0,76" "0,26" "0,97" "0,86" "0,15" "0,2" + CTA "0,08" "0,14" "0,14" "0,09" "0,05" "0,16" "0,09" "0,34" 0 "0,17" 0 "0,05" "0,18" "0,06" "0,21" "0,21" "0,05" 0 "0,09" "0,07" "0,07" "0,2" "0,23" "0,2" 0 "0,27" "0,2" "0,14" "0,1" 0 0 "0,06" "0,14" 0 "0,04" "0,08" 0 "0,16" 0 0 "0,13" "0,09" + CTT "0,22" "0,14" 0 "0,09" "0,1" "0,07" "0,11" "0,23" "0,33" "0,1" "0,13" "0,05" "0,31" "0,12" "0,05" "0,22" "0,16" "0,19" "0,09" "0,36" "0,27" "0,4" "0,23" "0,4" "0,43" "0,27" "0,2" "0,07" "0,1" "0,4" "0,37" "0,28" "0,16" "0,35" "0,09" "0,25" 0 "0,08" "0,03" 0 "0,3" "0,11" + CTC "0,2" "0,34" 0 "0,41" "0,07" "0,03" "0,05" "0,14" 0 "0,07" "0,38" 0 "0,09" "0,41" 0 "0,14" "0,11" 0 "0,18" "0,21" "0,13" "0,4" "0,23" "0,1" "0,29" 0 "0,2" 0 "0,03" 0 0 0 "0,03" "0,04" 0 0 "0,24" "0,18" 0 "0,14" "0,17" "0,07" + AAT "0,17" "0,15" 1 "0,07" "0,14" "0,06" "0,21" "0,43" "0,17" 0 0 "0,33" "0,37" "0,1" "0,17" "0,12" 0 "0,6" 0 "0,2" "0,5" "0,5" "0,67" "0,38" 0 "0,8" "0,5" "0,57" "0,38" 0 1 1 "0,52" "0,43" "0,4" 1 "0,62" "0,29" 0 0 "0,72" "0,47" + AAC "0,83" "0,85" 0 "0,93" "0,86" "0,94" "0,79" "0,57" "0,83" 1 0 "0,67" "0,63" "0,9" "0,83" "0,88" 1 "0,4" 1 "0,8" "0,5" "0,5" "0,33" "0,63" 0 "0,2" "0,5" "0,43" "0,63" 1 0 0 "0,48" "0,57" "0,6" 0 "0,38" "0,71" 1 1 "0,28" "0,53" + CCG "0,31" "0,28" 0 "0,47" "0,15" "0,46" "0,24" "0,08" "0,14" "0,27" "0,4" "0,23" "0,07" "0,07" "0,31" "0,31" "0,38" "0,25" "0,45" "0,14" "0,2" 0 0 0 0 "0,08" 0 "0,29" "0,14" 0 0 "0,5" "0,09" "0,24" "0,67" "0,22" 0 "0,55" 0 0 "0,11" "0,64" + CCA "0,1" "0,17" 1 "0,09" "0,15" "0,12" "0,14" "0,28" "0,29" "0,09" "0,2" "0,12" "0,21" "0,21" "0,22" "0,15" "0,05" "0,13" "0,1" "0,1" 0 1 "0,67" "0,4" "0,33" "0,31" "0,2" "0,14" "0,21" "0,2" 0 0 "0,23" "0,17" "0,17" 0 "0,6" "0,05" 0 0 "0,32" "0,18" + CCT "0,23" "0,16" 0 "0,13" "0,31" "0,07" "0,24" "0,38" 0 "0,12" 0 "0,23" "0,32" 0 "0,16" "0,15" "0,05" "0,13" "0,05" "0,24" "0,2" 0 "0,17" 0 "0,33" "0,15" "0,4" "0,36" "0,21" "0,2" 1 "0,38" "0,27" "0,37" "0,17" "0,67" "0,4" "0,25" "0,35" 0 "0,36" "0,14" + CCC "0,36" "0,4" 0 "0,32" "0,38" "0,34" "0,38" "0,26" "0,57" "0,52" "0,4" "0,42" "0,39" "0,71" "0,31" "0,39" "0,52" "0,5" "0,4" "0,52" "0,6" 0 "0,17" "0,6" "0,33" "0,46" "0,4" "0,21" "0,43" "0,6" 0 "0,13" "0,41" "0,22" 0 "0,11" 0 "0,15" "0,65" 1 "0,21" "0,05" + CAG "0,79" "0,76" "0,75" "0,78" "0,72" "0,84" "0,77" "0,16" "0,5" "0,87" 1 "0,36" "0,54" "0,83" "0,81" "0,61" "0,64" "0,83" "0,55" "0,73" "0,5" 1 "0,6" 0 1 "0,25" "0,6" "0,71" 1 1 "0,5" "0,4" "0,75" "0,88" "0,91" "0,75" "0,63" "0,65" 1 1 "0,32" "0,3" + CAA "0,21" "0,24" "0,25" "0,22" "0,28" "0,16" "0,23" "0,84" "0,5" "0,13" 0 "0,64" "0,46" "0,17" "0,19" "0,39" "0,36" "0,17" "0,45" "0,27" "0,5" 0 "0,4" 1 0 "0,75" "0,4" "0,29" 0 0 "0,5" "0,6" "0,25" "0,13" "0,09" "0,25" "0,38" "0,35" 0 0 "0,68" "0,7" + AGG "0,2" "0,09" "0,4" "0,12" "0,11" "0,09" "0,03" "0,1" "0,12" "0,09" "0,12" "0,11" "0,14" "0,09" "0,08" "0,07" "0,29" 0 "0,08" "0,06" "0,09" "0,2" "0,25" 0 "0,33" 0 "0,25" "0,29" "0,29" "0,2" "0,33" "0,13" "0,49" "0,22" "0,14" "0,25" "0,43" "0,36" 0 0 "0,12" 0 + AGA "0,14" "0,03" "0,6" "0,05" "0,02" "0,06" "0,11" "0,6" "0,02" "0,04" "0,12" 0 "0,2" 0 "0,03" "0,08" "0,12" 0 "0,08" "0,12" "0,09" "0,4" "0,25" "0,25" "0,33" "0,4" "0,13" 0 0 "0,2" "0,22" "0,13" "0,14" "0,33" "0,29" "0,13" "0,43" "0,14" "0,36" 0 "0,41" "0,05" + CGG "0,09" "0,1" 0 "0,05" "0,3" "0,26" "0,2" 0 "0,12" "0,11" "0,18" "0,06" "0,09" 0 "0,32" "0,1" "0,06" "0,13" 0 "0,12" "0,27" 0 0 0 0 0 0 "0,21" "0,29" "0,2" "0,11" "0,13" "0,11" "0,11" "0,29" "0,25" 0 "0,21" 0 0 "0,12" 0 + CGA "0,2" "0,09" 0 "0,05" "0,07" "0,02" "0,03" 0 "0,12" "0,17" "0,06" "0,22" "0,05" "0,09" "0,08" "0,16" "0,18" 0 "0,08" "0,24" 0 0 0 "0,25" "0,17" "0,2" 0 "0,21" "0,13" "0,13" "0,11" "0,13" "0,03" 0 0 0 0 "0,18" 0 0 "0,18" "0,11" + CGT "0,09" "0,19" 0 "0,1" "0,07" "0,09" "0,06" 0 "0,05" "0,09" "0,29" "0,22" "0,11" "0,18" "0,08" "0,05" "0,12" "0,25" "0,25" "0,35" "0,09" 0 0 0 0 "0,2" "0,13" "0,14" "0,03" "0,07" 0 "0,25" "0,05" "0,11" "0,07" "0,13" 0 "0,04" 0 0 "0,06" "0,55" + CGC "0,29" "0,5" 0 "0,62" "0,43" "0,47" "0,57" "0,3" "0,57" "0,5" "0,24" "0,39" "0,41" "0,64" "0,41" "0,54" "0,24" "0,63" "0,5" "0,12" "0,45" "0,4" "0,5" "0,5" "0,17" "0,2" "0,5" "0,14" "0,26" "0,2" "0,22" "0,25" "0,19" "0,22" "0,21" "0,25" "0,14" "0,07" "0,64" 1 "0,12" "0,29" + AGT "0,08" "0,03" 0 0 "0,05" "0,19" "0,1" "0,19" "0,1" "0,11" 0 "0,08" "0,07" "0,15" "0,1" "0,1" "0,1" "0,05" "0,05" "0,14" "0,33" 0 "0,2" "0,2" 0 "0,18" "0,25" "0,18" "0,29" 0 0 "0,18" "0,03" "0,25" "0,13" 0 0 "0,12" 0 0 "0,26" "0,32" + AGC "0,21" "0,26" 1 "0,29" "0,68" "0,46" "0,48" "0,12" "0,3" "0,22" 0 "0,5" "0,18" "0,25" "0,34" "0,29" "0,3" "0,27" "0,4" "0,14" "0,33" "0,17" "0,6" 0 "0,33" "0,18" "0,25" "0,18" "0,24" 0 "0,5" "0,27" "0,42" "0,15" "0,25" 0 "0,22" "0,35" 1 "0,7" "0,24" "0,25" + TCG "0,08" "0,16" 0 "0,23" 0 "0,1" "0,14" 0 "0,2" "0,06" "0,5" "0,17" "0,12" "0,1" "0,17" "0,12" "0,2" "0,05" "0,15" "0,33" 0 0 0 0 0 0 "0,25" "0,09" 0 "0,38" 0 "0,09" "0,1" "0,1" 0 "0,17" 0 "0,24" 0 0 0 "0,14" + TCA 0 "0,14" 0 "0,03" "0,05" "0,04" "0,05" "0,31" 0 "0,11" 0 0 "0,15" "0,1" "0,1" "0,14" "0,1" "0,14" "0,15" "0,14" 0 "0,33" "0,2" 0 0 "0,09" "0,25" 0 0 0 0 "0,09" "0,03" "0,05" "0,06" "0,17" 0 0 0 0 "0,12" "0,1" + TCT "0,25" "0,05" 0 "0,1" "0,05" "0,06" "0,07" "0,21" 0 "0,11" 0 "0,13" "0,22" "0,2" "0,12" "0,07" "0,05" "0,23" 0 "0,1" 0 "0,5" 0 "0,6" "0,33" "0,27" 0 "0,45" "0,19" "0,38" "0,5" "0,36" "0,26" "0,35" "0,31" "0,67" "0,67" "0,06" 0 0 "0,24" "0,08" + TCC "0,38" "0,36" 0 "0,35" "0,18" "0,15" "0,17" "0,17" "0,4" "0,39" "0,5" "0,13" "0,27" "0,2" "0,17" "0,29" "0,25" "0,27" "0,25" "0,14" "0,33" 0 0 "0,2" "0,33" "0,27" 0 "0,09" "0,29" "0,25" 0 0 "0,16" "0,1" "0,25" 0 "0,11" "0,24" 0 "0,3" "0,15" "0,11" + ACG "0,11" "0,12" 0 "0,18" "0,36" "0,24" "0,12" "0,02" "0,15" "0,13" "0,5" "0,13" "0,14" "0,18" "0,24" "0,14" "0,11" "0,23" "0,09" "0,13" 0 1 0 0 "0,14" 0 0 "0,06" "0,28" "0,33" 0 "0,33" "0,07" "0,27" "0,2" 0 0 "0,53" 0 0 0 "0,23" + ACA 0 "0,07" 0 "0,06" "0,18" "0,18" "0,12" "0,36" "0,15" "0,16" 0 "0,27" "0,18" "0,09" "0,1" "0,14" "0,32" "0,08" "0,27" "0,2" 0 0 "0,26" "0,56" "0,29" "0,09" "0,08" "0,29" "0,28" "0,17" "0,67" 0 "0,19" "0,18" "0,2" 0 "0,38" 0 0 0 "0,41" "0,26" + ACT "0,21" "0,1" 1 "0,09" 0 "0,12" "0,12" "0,36" "0,31" "0,1" 0 "0,07" "0,26" "0,27" "0,1" "0,06" "0,26" "0,23" "0,09" "0,33" "0,33" 0 "0,37" 0 "0,29" "0,55" "0,17" "0,41" "0,22" "0,17" 0 0 "0,19" "0,09" "0,2" "0,25" "0,44" "0,06" "0,29" "0,06" "0,41" "0,07" + ACC "0,68" "0,71" 0 "0,68" "0,45" "0,45" "0,65" "0,26" "0,38" "0,61" "0,5" "0,53" "0,42" "0,45" "0,57" "0,66" "0,32" "0,46" "0,55" "0,33" "0,67" 0 "0,37" "0,44" "0,29" "0,36" "0,75" "0,24" "0,22" "0,33" "0,33" "0,67" "0,56" "0,45" "0,4" "0,75" "0,19" "0,41" "0,71" "0,94" "0,19" "0,44" + GTG "0,32" "0,36" 1 "0,37" "0,68" "0,74" "0,6" "0,26" "0,76" "0,52" 1 "0,58" "0,45" 0 "0,91" "0,4" "0,17" "0,5" "0,29" "0,5" "0,2" "0,5" "0,38" "0,2" "0,2" "0,33" "0,29" "0,44" "0,65" "0,31" "0,33" "0,38" "0,59" "0,5" "0,29" "0,32" "0,35" "0,54" "0,93" "0,72" "0,23" "0,44" + GTA "0,32" "0,18" 0 "0,1" "0,16" "0,09" "0,07" "0,26" "0,06" "0,15" 0 "0,26" "0,17" "0,5" "0,06" "0,16" "0,17" 0 0 "0,2" 0 0 0 "0,4" "0,1" 0 "0,29" 0 "0,09" "0,15" "0,11" 0 "0,26" "0,15" 0 "0,21" 0 "0,18" 0 "0,06" "0,29" "0,11" + GTT "0,16" "0,09" 0 "0,1" "0,12" "0,03" "0,07" "0,39" "0,06" "0,15" 0 "0,16" "0,25" "0,25" "0,03" "0,14" "0,33" "0,3" "0,43" "0,1" "0,4" "0,5" "0,5" "0,2" "0,3" "0,5" "0,14" "0,56" "0,22" "0,38" "0,44" "0,38" "0,13" "0,25" "0,29" "0,42" "0,47" "0,18" "0,07" 0 "0,43" "0,18" + GTC "0,21" "0,37" 0 "0,43" "0,04" "0,15" "0,25" "0,1" "0,12" "0,18" 0 0 "0,13" "0,25" 0 "0,3" "0,33" "0,2" "0,29" "0,2" "0,4" 0 "0,13" "0,2" "0,4" "0,17" "0,29" 0 "0,04" "0,15" "0,11" "0,25" "0,03" "0,1" "0,43" "0,05" "0,18" "0,11" 0 "0,22" "0,06" "0,27" + TAT "0,21" "0,14" 0 "0,1" "0,2" "0,2" "0,09" "0,47" "0,5" "0,33" 0 "0,5" "0,23" "0,29" "0,5" "0,1" "0,5" "0,5" 0 "0,13" "0,33" 1 "0,7" 1 "0,5" "0,4" 0 0 "0,27" "0,25" "0,5" "0,5" "0,4" "0,8" 0 "0,6" "0,55" "0,24" 0 "0,09" "0,59" "0,63" + TAC "0,79" "0,86" 1 "0,9" "0,8" "0,8" "0,91" "0,53" "0,5" "0,67" 0 "0,5" "0,77" "0,71" "0,5" "0,9" "0,5" "0,5" 1 "0,88" "0,67" 0 "0,3" 0 "0,5" "0,6" 1 1 "0,73" "0,75" "0,5" "0,5" "0,6" "0,2" 1 "0,4" "0,45" "0,76" 1 "0,91" "0,41" "0,38" diff --git a/Scripts/tabla_cai_early_proteins.txt b/Scripts/tabla_cai_early_proteins.txt new file mode 100644 index 0000000..16a5b8f --- /dev/null +++ b/Scripts/tabla_cai_early_proteins.txt @@ -0,0 +1,17 @@ +Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc +E1A 870 0.760 54.8 64.1 46.9 53.4 51.9 +E1B19K 531 0.789 52.5 54.8 41.8 61.0 52.8 +E1B55K 1491 0.798 52.6 52.7 45.5 59.6 48.5 +E3_12.5K 324 0.783 54.0 63.9 40.7 57.4 60.1 +E3_CR1-alpha0 192 0.691 44.3 42.2 45.3 45.3 40.4 +E3_gp19K 483 0.753 40.0 39.8 37.3 42.9 53.1 +10.5K 282 0.743 46.5 41.5 44.7 53.2 52.0 +E3_RID-alpha 276 0.704 46.7 48.9 38.0 53.3 61.0 +E3_RID-beta 399 0.739 46.1 45.1 48.1 45.1 58.5 +E3_14.7K 387 0.749 48.8 54.3 35.7 56.6 51.5 +E4_ORF6/7 453 0.755 51.7 53.6 49.7 51.7 52.9 +E4_34K_(reversa_complementaria) 885 0.805 53.4 50.5 45.4 64.4 46.9 +E4_ORF4_(reversa_complementaria) 345 0.714 54.5 55.7 49.6 58.3 60.6 +E4_ORF3_(reversa_complementaria) 351 0.771 45.0 56.4 29.9 48.7 47.4 +E4_ORFB_(reversa_complementaria) 393 0.698 48.3 60.3 35.1 49.6 55.6 +E4_ORF1_(reversa_complementaria) 387 0.708 47.3 60.5 36.4 45.0 43.0 diff --git a/Scripts/tabla_cai_human_proteins.txt b/Scripts/tabla_cai_human_proteins.txt new file mode 100644 index 0000000..d96a05b --- /dev/null +++ b/Scripts/tabla_cai_human_proteins.txt @@ -0,0 +1,55 @@ +Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc NM_004316 711 0.782 68.2 67.5 49.4 87.8 33.4 NM_000758 435 0.838 58.2 55.9 43.4 75.2 40.8 NM_005986 1176 0.741 76.4 73.2 58.9 97.2 28.0 NM_144647 627 0.777 43.5 50.7 34.0 45.9 61.0 NM_007015 1005 0.800 49.9 51.9 43.6 54.0 51.0 NM_001011705 1002 0.799 49.8 51.8 43.7 53.9 51.0 NM_004179 1335 0.756 40.8 49.4 34.2 38.9 52.3 NM_015379 378 0.834 64.6 59.5 50.8 83.3 36.8 NM_001918 1449 0.724 40.9 51.3 37.5 34.0 52.0 NM_172197 1029 0.782 60.3 65.3 57.1 58.6 50.4 NM_001136 1215 0.795 60.7 67.7 52.3 62.0 46.2 NM_174918 564 0.815 50.9 50.5 36.2 66.0 45.8 NM_080647 1488 0.785 70.3 69.2 54.8 86.9 36.8 NM_080646 1197 0.798 66.0 63.4 50.9 83.7 39.2 NM_005992 1119 0.804 66.4 62.5 50.7 86.1 38.4 NM_000475 1413 0.767 63.2 60.7 49.7 79.2 42.7 NM_207379 594 0.848 62.8 59.1 41.4 87.9 32.7 NM_031457 753 0.786 51.1 52.2 44.6 56.6 48.2 NM_173533 2946 0.738 43.8 50.1 40.1 41.0 54.5 NM_004851 1263 0.784 59.5 63.7 47.3 67.7 48.9 NM_005853 1452 0.745 67.5 63.4 58.5 80.6 42.4 NM_020299 951 0.837 50.1 53.9 33.8 62.5 51.3 NM_194300 3135 0.782 50.4 55.1 45.2 50.8 52.5 NM_020420 1173 0.755 44.0 53.2 43.5 35.3 44.7 NM_020160 1266 0.844 61.8 63.5 48.3 73.7 44.7 NM_004081 2235 0.753 45.2 53.7 44.2 37.9 45.7 NM_001009813 1077 0.843 61.1 64.1 46.0 73.3 45.1 NM_001005375 1740 0.754 44.7 53.4 44.0 36.7 45.5 NM_000673 1161 0.772 46.5 51.4 42.6 45.5 55.4 NM_145872 1050 0.803 51.5 54.0 37.7 62.9 53.0 NM_016116 1281 0.802 49.1 51.3 38.2 57.8 50.8 NM_002042 1440 0.826 51.2 46.3 39.4 68.1 48.8 NM_002980 1323 0.816 55.9 54.6 39.7 73.2 43.6 NM_002988 270 0.768 53.7 51.1 42.2 67.8 43.7 NM_000779 1536 0.858 56.4 58.2 38.5 72.5 44.3 NM_002826 2244 0.831 61.3 62.8 47.5 73.7 43.8 NM_001004128 1815 0.824 60.3 61.2 46.9 72.9 44.7 NM_153675 1374 0.811 68.0 59.6 52.0 92.6 31.4 NM_021784 1392 0.809 67.9 59.3 52.2 92.2 31.5 NM_006658 468 0.783 45.1 55.8 33.3 46.2 56.2 NM_006026 642 0.821 66.8 58.4 50.5 91.6 32.2 NM_152750 2658 0.786 48.4 52.4 40.5 52.3 51.2 NM_002091 447 0.758 58.6 63.1 48.3 64.4 47.4 NM_001012513 417 0.778 59.7 62.6 45.3 71.2 44.9 NM_001012512 426 0.765 58.9 62.7 47.2 66.9 46.2 NM_002994 345 0.768 55.4 59.1 44.3 62.6 54.2 NM_207336 1788 0.830 68.7 66.4 57.7 82.0 39.0 NM_005282 1089 0.858 64.1 58.7 43.0 90.6 32.0 NM_003862 624 0.853 60.4 56.3 39.9 85.1 37.2 NM_003357 276 0.775 53.3 53.3 41.3 65.2 46.8 NM_198557 1074 0.716 38.5 46.1 34.1 35.2 47.7 NM_173642 1176 0.810 55.6 59.4 41.1 66.3 50.9 NM_024335 1341 0.788 61.4 62.4 56.6 65.1 49.1 NM_020370 1191 0.796 55.8 56.7 45.1 65.5 48.3 NM_021615 1188 0.803 67.3 67.9 50.0 84.1 34.9 NM_001011718 1740 0.817 67.0 61.9 51.9 87.2 36.9 NM_213621 1551 0.836 57.3 55.5 39.8 76.6 43.2 NM_000869 1455 0.835 56.8 54.6 38.1 77.7 42.9 NM_198181 1299 0.803 56.7 66.1 41.3 62.8 50.0 NM_178172 555 0.852 64.7 62.2 52.4 79.5 39.9 NM_144565 1452 0.815 58.8 57.9 51.0 67.6 47.2 NM_058248 462 0.746 43.9 44.2 43.5 44.2 59.6 NM_052863 315 0.824 69.5 71.4 50.5 86.7 34.7 NM_033259 240 0.887 65.0 62.5 42.5 90.0 30.2 NM_021233 1086 0.761 44.0 44.5 41.4 46.1 55.0 NM_014398 1251 0.740 49.9 53.0 49.6 47.0 56.2 NM_005598 402 0.846 67.4 70.1 51.5 80.6 37.3 NM_007037 2670 0.842 64.5 64.4 49.3 79.8 39.8 NM_005982 855 0.813 61.3 60.4 42.8 80.7 37.7 NM_153813 3021 0.802 73.5 70.1 61.2 89.3 33.2 NM_147147 1083 0.763 41.6 44.3 37.4 42.9 53.4 NM_007073 1083 0.763 41.6 44.3 37.4 42.9 53.4 NM_181785 1386 0.709 38.7 42.0 41.1 33.1 52.0 NM_181486 1557 0.818 55.6 54.9 45.3 66.5 48.2 NM_080718 1557 0.818 55.6 54.9 45.3 66.5 48.2 NM_080717 1407 0.822 54.0 53.3 44.1 64.6 49.3 NM_000192 1557 0.818 55.6 54.9 45.3 66.5 48.2 NM_007117 729 0.805 63.8 78.6 46.1 66.7 46.0 NM_206996 6672 0.752 42.1 52.1 34.8 39.3 53.5 NM_152601 1926 0.774 40.2 42.5 46.4 31.8 44.3 NM_144976 1662 0.773 40.3 46.0 43.7 31.2 41.5 NM_006774 792 0.820 59.1 61.7 42.4 73.1 45.5 NM_001460 1416 0.768 44.4 49.6 36.9 46.6 54.9 NM_183422 3222 0.709 50.6 60.8 51.5 39.4 51.3 NM_006022 435 0.775 50.8 57.9 40.7 53.8 48.7 NM_016529 3567 0.785 48.0 49.8 38.3 55.8 55.7 NM_025245 1125 0.834 59.5 58.4 49.3 70.7 46.5 NM_006274 297 0.843 58.6 56.6 48.5 70.7 40.3 NM_004246 1662 0.789 52.9 52.7 42.1 64.1 52.2 NM_002351 387 0.780 48.1 53.5 45.0 45.7 58.9 NM_176813 501 0.695 38.7 47.9 32.3 35.9 49.4 NM_152545 1422 0.760 43.3 47.7 35.2 47.0 57.1 NM_175929 759 0.741 43.6 44.7 38.7 47.4 56.4 NM_004115 744 0.769 50.1 50.0 44.0 56.5 53.8 NM_006078 972 0.833 55.8 47.2 46.0 74.1 42.6 NM_003395 1098 0.832 66.6 62.0 53.8 83.9 34.9 NM_002438 4371 0.760 43.8 44.8 43.9 42.7 54.5 NM_016574 1245 0.854 57.7 49.9 40.0 83.1 37.3 NM_000795 1332 0.856 57.3 49.3 40.3 82.2 37.8 NM_199355 3666 0.773 51.0 51.9 48.0 53.0 57.1 NM_199180 2127 0.812 64.0 67.6 55.6 69.0 46.3 NM_199179 1752 0.813 63.5 66.3 55.3 68.8 46.4 NM_032123 1902 0.806 63.7 67.4 54.7 69.1 46.3 NM_016073 612 0.787 46.4 52.0 43.1 44.1 60.0 NM_024889 1092 0.767 43.7 50.3 37.9 42.9 58.1 NM_053049 486 0.864 61.5 55.6 45.1 84.0 37.3 NM_000209 852 0.751 70.8 73.6 53.9 84.9 37.4 NM_000207 333 0.856 64.6 69.4 44.1 80.2 37.5 NM_006507 501 0.849 51.7 43.1 45.5 66.5 49.8 NM_002509 822 0.812 66.8 64.2 48.9 87.2 36.9 NM_001906 792 0.900 64.1 55.3 50.4 86.7 31.3 NM_007352 813 0.827 61.5 58.3 50.9 75.3 41.6 NM_001868 1260 0.856 57.8 54.8 39.5 79.0 40.6 NM_000928 447 0.870 53.7 44.3 43.6 73.2 39.9 NM_002054 543 0.790 46.2 50.3 39.2 49.2 55.8 NM_173851 1110 0.763 49.3 53.8 38.4 55.7 52.2 NM_001832 339 0.857 56.9 48.7 47.8 74.3 43.2 NM_014276 1554 0.815 62.4 60.0 48.8 78.4 42.4 NM_002769 744 0.839 54.2 53.6 42.7 66.1 45.0 NM_000415 270 0.776 44.8 47.8 36.7 50.0 61.0 NM_005747 813 0.826 59.8 56.8 48.7 73.8 42.7 NM_001871 1254 0.784 48.1 52.2 41.1 51.0 53.4 NM_000936 1398 0.775 45.9 50.0 42.3 45.5 55.7 NM_001048 351 0.815 58.7 61.5 46.2 68.4 37.6 NM_021176 1068 0.750 44.9 46.6 38.2 50.0 57.7 NM_002909 501 0.864 53.3 46.7 44.3 68.9 45.6 NM_007272 807 0.860 60.8 55.8 46.1 80.7 40.4 NM_201589 1062 0.812 73.6 74.3 52.0 94.6 30.4 NM_000818 1758 0.768 48.1 52.0 40.4 51.9 55.5 NM_033440 810 0.831 60.0 51.5 50.4 78.1 42.0 NM_001869 1260 0.800 48.9 54.0 38.3 54.3 53.5 NM_032115 930 0.823 59.1 58.4 45.5 73.5 40.6 NM_001502 1605 0.816 54.5 54.6 43.9 65.0 51.1 NM_001007242 1164 0.809 53.5 54.4 40.5 65.7 51.3 NM_001007241 1173 0.807 53.5 54.7 40.7 65.2 51.7 NM_001007240 1614 0.815 54.5 54.8 44.1 64.7 51.3 NM_000352 4746 0.832 57.7 56.7 38.9 77.4 42.3 NM_001008219 1536 0.753 41.6 48.4 42.2 34.2 47.9 NM_001008218 1536 0.753 41.6 48.4 42.2 34.2 47.9 NM_000699 1536 0.752 41.6 48.8 41.8 34.2 46.4 NM_173560 2787 0.765 46.7 50.7 42.4 46.9 55.7 NM_001010859 756 0.742 51.6 56.7 42.5 55.6 53.1 NM_001807 2271 0.835 64.6 61.3 51.7 80.8 38.6 NM_000371 444 0.779 54.3 59.5 46.6 56.8 55.1 NM_017521 717 0.823 71.0 68.6 53.6 90.8 33.9 NM_003020 636 0.784 50.3 61.3 40.6 49.1 53.4 NM_013389 4080 0.834 59.2 57.1 43.2 77.4 41.4 NM_145702 1776 0.739 41.7 46.1 39.0 39.9 51.1 NM_001907 795 0.807 58.4 53.2 52.5 69.4 47.3 NM_001117 531 0.769 65.3 63.8 52.0 80.2 42.2 NM_005068 2301 0.806 53.9 52.9 45.5 63.2 51.2 NM_013271 783 0.727 75.6 88.5 57.5 80.8 38.4 NM_001819 2034 0.815 52.5 59.6 40.0 58.0 49.4 NM_198151 1353 0.747 45.5 51.7 39.2 45.7 52.6 NM_005515 1206 0.765 74.7 73.9 58.7 91.5 32.8 NM_002771 744 0.854 55.5 54.0 43.5 69.0 41.6 NM_014696 1377 0.826 66.2 68.2 60.1 70.2 42.5 NM_002722 288 0.799 60.8 65.6 47.9 68.8 42.7 NM_003180 1161 0.840 63.6 66.9 42.4 81.4 39.0 NM_144974 822 0.692 32.7 47.4 25.2 25.5 43.9 NM_006849 1578 0.821 62.6 68.1 41.1 78.7 42.1 NM_198448 528 0.857 52.1 47.2 48.3 60.8 51.4 NM_001008387 528 0.857 52.1 47.2 48.3 60.8 51.4 NM_000439 2262 0.788 49.0 53.2 43.2 50.5 53.4 NM_006217 1218 0.717 36.9 47.5 31.0 32.3 45.0 NM_182532 633 0.820 63.8 62.1 58.3 71.1 44.8 NM_080870 4182 0.806 48.4 49.0 54.9 41.2 44.9 NM_213606 1551 0.764 47.3 49.5 44.7 47.8 49.0 NM_198585 1377 0.829 64.1 63.0 46.4 82.8 40.2 NM_080860 930 0.783 50.9 61.9 39.4 51.3 61.0 NM_178820 852 0.804 64.2 66.5 49.6 76.4 43.0 NM_003717 342 0.851 60.2 66.7 49.1 64.9 39.4 NM_001007595 1095 0.779 76.5 77.8 64.9 86.8 35.8 NM_030818 1191 0.853 61.9 58.2 45.3 82.1 39.8 NM_005461 972 0.802 67.1 66.7 46.6 88.0 37.0 NM_003378 1848 0.773 71.5 80.0 51.6 82.8 39.8 NM_002257 789 0.832 57.2 60.8 42.2 68.4 45.9 NM_019596 660 0.814 48.8 41.4 41.8 63.2 50.9 NM_006998 831 0.790 46.7 55.2 30.7 54.2 50.6 NM_003122 240 0.771 44.2 45.0 46.3 41.3 58.7 NM_173802 789 0.767 47.7 52.1 44.9 46.0 51.0 NM_032885 1425 0.848 64.6 63.8 51.4 78.7 39.0 NM_019891 1404 0.748 42.5 49.4 37.4 40.6 57.4 NM_139058 1689 0.765 72.5 72.6 59.0 85.8 34.9 NM_024955 2055 0.833 59.7 60.3 41.8 77.1 43.4 NM_003469 1854 0.762 45.0 56.8 32.5 45.6 55.9 NM_174881 372 0.829 64.0 62.9 50.8 78.2 40.6 NM_139161 363 0.800 63.9 63.6 51.2 76.9 43.2 NM_144676 723 0.766 47.2 51.9 37.3 52.3 59.0 NM_012121 1071 0.846 65.6 65.0 51.5 80.4 37.6 NM_002234 1842 0.840 65.1 64.0 46.4 84.9 38.3 NM_020685 387 0.669 38.0 55.0 34.1 24.8 48.3 NM_003015 954 0.817 65.1 62.6 43.1 89.6 34.8 NM_032545 672 0.788 66.4 64.7 55.4 79.0 45.1 NM_153046 4149 0.747 47.1 54.3 36.9 50.0 56.7 NM_198445 1359 0.792 65.6 74.2 49.2 73.3 42.5 NM_024886 774 0.743 75.5 63.6 88.4 74.4 41.4 NM_016584 570 0.777 57.0 66.8 45.8 58.4 53.6 NM_001005473 966 0.782 47.3 52.8 36.3 52.8 52.5 NM_006133 3129 0.827 62.8 61.5 44.6 82.5 38.6 NM_001873 1431 0.796 51.9 57.2 40.9 57.4 52.6 NM_148964 1092 0.819 54.6 50.5 48.1 65.1 49.2 NM_001910 1191 0.815 54.8 55.4 42.8 66.2 47.6 NM_007185 1398 0.847 61.6 63.9 44.6 76.2 40.2 NM_001604 1311 0.769 51.8 51.9 49.9 53.5 54.2 NM_000280 1269 0.771 52.0 51.3 50.8 53.9 54.9 NM_001248 1590 0.801 49.4 50.9 40.8 56.4 53.1 NM_025257 2133 0.816 55.5 52.5 39.4 74.7 44.3 NM_006688 777 0.838 68.2 65.3 52.5 86.9 33.1 NM_152644 285 0.760 50.9 54.7 43.2 54.7 52.2 NM_152477 1500 0.780 46.7 53.6 40.8 45.8 49.5 NM_032639 1323 0.769 42.9 47.2 36.7 44.9 53.8 NM_022034 1824 0.758 41.5 42.6 40.0 41.9 54.9 NM_004778 1188 0.816 68.9 64.1 49.7 92.7 31.6 NM_006423 558 0.840 63.1 65.6 43.0 80.6 38.8 NM_018476 378 0.803 49.5 59.5 36.5 52.4 58.2 NM_014222 519 0.804 49.7 57.2 39.9 52.0 56.2 NM_025265 1398 0.780 47.7 53.6 39.7 49.8 54.5 NM_207322 1110 0.783 76.6 77.8 64.1 87.8 35.1 NM_002500 1071 0.813 56.6 58.3 42.6 68.9 50.7 NM_000164 1401 0.811 62.4 61.0 46.0 80.1 43.1 NM_024087 789 0.795 53.5 62.4 44.5 53.6 48.1 NM_182553 483 0.821 53.4 47.8 34.2 78.3 41.0 NM_172365 1269 0.762 43.1 48.9 35.7 44.7 54.8 NM_006789 675 0.843 54.8 60.4 34.2 69.8 44.1 NM_152774 519 0.758 51.8 50.9 45.1 59.5 49.2 NM_002594 1917 0.841 55.6 55.9 43.3 67.4 47.3 NM_001001563 1371 0.776 59.8 62.8 48.8 67.8 54.4 NM_198447 399 0.809 54.4 49.6 36.8 76.7 44.5 NM_134325 2664 0.833 55.6 54.1 39.8 72.9 43.9 NM_052960 405 0.828 47.4 45.9 35.6 60.7 40.7 NM_052934 2376 0.838 55.3 53.3 38.6 74.0 43.1 NM_031914 1938 0.777 49.8 54.0 41.6 53.7 57.5 NM_016261 1362 0.753 41.9 48.0 36.1 41.4 54.3 NM_003835 2025 0.844 54.7 51.9 43.0 69.3 44.7 NM_002531 1257 0.831 65.2 56.8 45.1 93.6 30.7 NM_020844 1365 0.792 46.3 51.0 42.6 45.3 50.8 NM_199121 195 0.678 68.7 78.5 67.7 60.0 59.3 NM_022834 1338 0.801 71.7 74.4 56.5 84.3 35.7 NM_002196 1533 0.775 75.5 74.8 60.1 91.8 30.8 NM_152913 1272 0.817 59.7 55.7 44.1 79.5 42.0 NM_002523 1296 0.817 65.7 67.1 44.2 85.9 37.7 NM_002578 1635 0.762 44.2 52.8 39.1 40.6 56.1 NM_017681 555 0.750 42.3 48.1 36.8 42.2 43.8 NM_003936 1104 0.790 71.8 69.6 56.0 89.9 33.3 NM_006741 516 0.806 57.2 60.5 48.3 62.8 55.0 NM_019886 1461 0.800 70.9 74.9 51.1 86.7 35.6 NM_015063 2766 0.831 64.5 63.6 43.3 86.8 35.3 NM_173853 723 0.754 59.9 69.3 46.9 63.5 57.7 NM_033194 480 0.817 62.9 64.4 48.8 75.6 42.3 NM_000281 315 0.854 53.7 57.1 35.2 68.6 44.3 NM_207034 717 0.820 60.9 62.8 54.0 66.1 51.9 NM_207033 675 0.827 62.2 64.0 54.7 68.0 49.6 NM_207032 660 0.833 60.5 58.2 56.4 66.8 48.3 NM_000114 717 0.820 60.9 62.8 54.0 66.1 51.9 NM_000888 2367 0.778 47.1 51.2 42.1 47.9 54.6 NM_022835 4161 0.807 60.8 67.4 53.0 62.1 49.3 NM_021248 2487 0.818 66.2 67.2 45.8 85.5 36.2 NM_000492 4443 0.739 41.5 46.0 36.3 42.3 52.7 NM_003143 447 0.707 41.8 52.3 36.2 36.9 52.2 NM_006484 1806 0.833 62.6 63.1 47.8 76.7 40.9 NM_006483 1770 0.831 62.4 62.7 47.8 76.6 41.0 NM_004714 1890 0.833 63.4 64.1 48.4 77.8 40.3 NM_003695 387 0.853 64.1 55.0 55.8 81.4 38.3 NM_207117 927 0.795 66.0 65.4 50.8 81.9 40.5 NM_021957 2112 0.771 44.5 52.4 38.2 42.8 52.6 NM_001818 972 0.753 46.0 56.5 31.8 49.7 58.2 NM_000780 1515 0.765 43.5 45.5 37.2 47.7 56.3 NM_000133 1386 0.749 41.2 48.9 39.4 35.3 51.0 NM_000670 1143 0.745 44.9 51.2 44.4 39.1 52.8 NM_000412 1578 0.781 49.3 61.4 43.2 43.3 52.9 NM_001646 384 0.855 61.2 54.7 46.1 82.8 33.7 NM_000488 1395 0.804 49.9 51.2 36.6 61.9 51.6 NM_000667 1128 0.760 47.5 53.2 42.6 46.8 56.0 NM_005143 1221 0.768 49.4 57.0 37.1 54.1 57.0 NM_016186 1335 0.820 50.0 51.9 35.7 62.5 50.0 NM_001737 1680 0.756 41.2 47.0 40.5 36.1 49.1 NM_000771 1473 0.803 45.1 48.9 34.8 51.7 51.4 NM_006944 636 0.804 46.1 40.6 42.9 54.7 59.6 prr 1935 0.779 47.9 48.5 52.2 42.9 54.5 NM_000508 2601 0.772 48.0 50.1 49.3 44.8 55.0 NM_144639 2031 0.854 60.3 60.1 42.8 78.0 42.4 NM_021139 1587 0.740 42.2 49.1 35.7 41.8 50.3 NM_001633 1059 0.815 56.6 53.8 45.6 70.3 47.4 NM_000567 675 0.786 49.8 48.0 40.9 60.4 59.2 NM_005666 813 0.721 38.4 43.9 42.4 28.8 45.7 NM_002113 993 0.734 41.0 44.4 47.4 31.1 50.4 NM_005141 1476 0.758 44.7 49.0 40.4 44.7 54.5 NM_006512 393 0.757 49.9 48.1 45.8 55.7 51.3 NM_001622 1104 0.803 56.6 66.0 45.9 57.9 51.9 NM_057096 1263 0.778 42.0 48.0 31.6 46.6 52.9 NM_057095 1512 0.772 41.7 47.6 32.3 45.2 52.7 NM_022820 1515 0.771 41.7 47.5 32.5 45.1 52.6 NM_017460 1512 0.779 43.7 49.6 34.3 47.0 52.1 NM_000613 1389 0.797 55.8 58.7 49.0 59.6 52.8 NM_020995 1047 0.767 49.5 56.2 36.4 55.9 58.0 pr2 1776 0.786 48.4 49.5 44.1 51.5 54.8 NM_000354 1248 0.775 44.9 49.5 34.1 51.0 57.4 NM_000770 1473 0.788 44.0 48.3 36.0 47.7 52.4 NM_021870 1362 0.775 41.5 46.7 37.7 40.1 51.6 NM_000509 1314 0.774 41.2 46.1 37.9 39.7 51.7 NM_004139 1446 0.805 54.1 54.4 38.2 69.9 50.2 NM_000607 606 0.825 52.6 52.0 33.7 72.3 55.5 NM_000562 1755 0.813 49.4 49.9 44.8 53.5 54.2 NM_080914 879 0.830 58.0 59.7 39.9 74.4 45.5 NM_080913 864 0.833 57.8 59.0 39.6 74.7 45.5 NM_080912 936 0.832 57.8 59.3 41.3 72.8 45.9 NM_001181 936 0.832 57.8 59.3 41.3 72.8 45.9 NM_000477 1830 0.751 43.0 53.8 36.2 38.9 53.9 NM_001639 672 0.782 47.5 51.8 37.5 53.1 50.7 NM_000608 606 0.824 52.6 51.0 35.1 71.8 52.9 NM_006446 2076 0.727 36.3 38.6 39.0 31.4 46.9 NM_005651 1221 0.762 41.4 50.1 31.4 42.5 54.2 NM_001701 1257 0.741 48.3 59.4 39.4 46.1 57.7 NM_030754 369 0.806 55.6 55.3 51.2 60.2 48.5 NM_000506 1869 0.837 59.1 58.7 45.3 73.4 44.2 NM_016413 1083 0.726 42.6 48.5 38.5 40.7 55.6 NM_001872 1272 0.725 42.2 47.9 38.0 40.8 56.8 NM_201553 939 0.775 43.3 48.6 35.5 46.0 55.6 NM_201552 939 0.775 43.3 48.6 35.5 46.0 55.6 NM_147203 939 0.775 43.3 48.6 35.5 46.0 55.6 NM_004467 939 0.775 43.3 48.6 35.5 46.0 55.6 NM_002215 2736 0.836 55.7 58.0 37.3 71.8 44.3 NM_003167 858 0.773 43.0 44.1 34.3 50.7 52.8 NM_002302 456 0.764 45.2 48.0 44.7 42.8 55.2 NM_000762 1485 0.872 56.6 54.3 36.2 79.4 41.2 NM_145662 294 0.777 50.3 51.0 39.8 60.2 57.6 NM_013453 294 0.777 50.3 51.0 39.8 60.2 57.6 NM_000030 1179 0.853 62.7 62.3 41.7 84.0 37.3 NM_006894 1599 0.792 46.3 47.5 38.5 53.1 54.8 NM_001002294 1599 0.792 46.3 47.5 38.5 53.1 54.8 NM_000106 1494 0.830 63.9 68.3 42.6 80.9 38.3 NM_001994 1986 0.754 37.6 42.4 41.8 28.5 43.7 NM_199161 369 0.809 55.0 56.9 48.8 59.3 50.1 NM_000331 369 0.809 55.0 56.9 48.8 59.3 50.1 NM_130786 1488 0.831 65.7 66.9 49.0 81.3 40.1 NM_000773 1482 0.826 52.4 54.3 35.8 67.2 49.0 NM_000353 1365 0.806 51.0 54.3 40.4 58.2 54.3 NM_014375 1149 0.788 50.2 55.1 43.9 51.7 53.7 NM_021023 993 0.738 37.5 41.4 44.4 26.6 41.4 NM_000186 3696 0.735 39.8 45.6 45.4 28.5 46.3 NM_000042 1038 0.767 43.6 45.4 46.8 38.7 54.6 NM_000040 300 0.834 60.3 61.0 46.0 74.0 40.6 NM_000583 1425 0.753 44.6 50.1 39.8 44.0 56.6 NM_002218 2793 0.831 56.9 58.8 41.8 70.0 45.4 NM_002665 291 0.741 42.3 51.5 33.0 42.3 50.4 NM_000765 1512 0.766 43.3 49.0 34.7 46.0 52.9 NM_000035 1095 0.788 53.5 59.5 42.2 58.9 52.4 NM_000483 306 0.780 52.6 56.9 38.2 62.7 58.1 NM_030589 1332 0.870 55.8 52.3 35.1 80.0 40.8 NM_000764 1485 0.871 56.4 53.7 36.0 79.6 41.2 NM_000301 2433 0.789 50.2 51.4 48.6 50.7 55.5 NM_000039 804 0.852 62.7 67.9 35.4 84.7 31.7 NM_002217 2673 0.850 54.4 54.8 35.7 72.7 45.2 NM_003126 7260 0.786 48.6 60.2 31.7 54.0 54.0 NM_018960 888 0.826 59.3 60.5 41.9 75.7 42.7 NM_052971 234 0.790 51.3 46.2 53.8 53.8 52.1 NM_001643 303 0.820 52.5 56.4 35.6 65.3 44.3 NM_001002236 1257 0.843 52.0 54.7 32.7 68.7 45.5 NM_001002235 1257 0.843 52.0 54.7 32.7 68.7 45.5 NM_000295 1257 0.843 52.0 54.7 32.7 68.7 45.5 NM_000638 1437 0.849 59.0 59.7 46.1 71.2 46.6 NM_017545 1113 0.765 48.8 56.9 40.4 49.1 53.2 NM_000015 873 0.792 42.3 45.0 34.4 47.4 50.2 NM_001875 4503 0.772 46.2 52.5 38.7 47.4 54.6 NM_000446 1068 0.757 42.4 52.2 33.1 41.9 50.1 NM_213605 1479 0.848 66.8 64.5 50.7 85.2 37.2 NM_177550 1707 0.846 56.8 52.9 39.9 77.5 43.3 NM_002108 1974 0.764 51.9 59.4 41.2 55.2 55.9 NM_000045 969 0.776 47.3 55.7 41.8 44.3 48.0 NM_014495 1383 0.701 35.9 45.3 31.9 30.6 47.2 NM_000716 759 0.796 48.0 50.2 39.1 54.5 57.2 NM_000277 1359 0.805 47.2 52.5 36.2 52.8 55.1 NM_002150 1182 0.843 54.6 56.1 32.7 74.9 43.1 NM_000893 1284 0.781 46.0 47.0 41.4 49.8 54.4 NM_052828 1188 0.815 55.0 58.6 41.4 64.9 51.9 NM_006778 1446 0.831 56.8 58.7 42.5 69.1 47.0 NM_005538 1059 0.793 57.0 61.8 47.3 62.0 53.2 NM_003708 954 0.837 56.0 54.7 41.5 71.7 46.6 NM_002216 2841 0.774 46.6 51.4 35.3 53.2 51.9 NM_019844 2109 0.721 36.4 39.1 39.3 30.9 45.7 NM_005989 981 0.768 45.4 51.7 35.8 48.6 55.5 NM_000312 1386 0.850 62.0 59.3 43.3 83.3 38.4 NM_000429 1188 0.835 57.2 60.4 39.4 71.7 47.6 NM_000065 2805 0.782 44.6 46.8 43.9 43.1 54.9 NM_001443 384 0.834 47.1 43.8 28.9 68.8 40.0 NM_001385 1560 0.786 52.7 58.5 43.8 55.8 53.0 NM_000672 1107 0.758 45.4 50.9 42.0 43.4 55.7 NM_152635 1638 0.815 55.1 56.2 44.0 65.2 49.9 NM_020998 2178 0.804 61.4 61.8 50.1 72.3 47.9 NM_000151 1074 0.782 52.0 52.2 36.9 67.0 52.0 NM_006843 987 0.826 61.3 62.3 44.4 77.2 45.0 NM_001671 876 0.831 62.1 63.4 40.4 82.5 42.6 NM_001756 1218 0.836 53.2 50.2 36.5 72.9 46.5 NM_005518 1527 0.807 52.9 54.8 43.0 60.9 49.7 NM_001735 5031 0.736 40.1 47.2 36.3 36.6 51.5 NM_000892 1917 0.757 43.3 44.0 44.1 41.8 55.5 NM_000340 1575 0.734 44.4 50.3 39.8 43.0 52.1 NM_005122 1047 0.807 54.7 60.2 39.5 64.5 50.9 NM_001133 1800 0.749 39.3 46.3 33.3 38.2 54.8 NM_003891 1203 0.775 55.5 57.6 43.9 65.1 52.0 NM_001134 1830 0.733 42.0 50.7 37.2 38.0 51.5 NM_018687 597 0.826 64.5 74.9 43.7 74.9 41.8 NM_017416 2061 0.762 42.6 48.8 34.6 44.5 53.5 NM_003049 1050 0.819 52.0 48.0 39.7 68.3 47.2 NM_182617 1734 0.782 51.2 54.0 42.0 57.4 53.1 NM_001010845 1734 0.782 51.6 54.5 42.0 58.1 52.9 NM_019101 567 0.829 52.6 53.4 41.8 62.4 49.4 NM_145740 669 0.799 45.7 51.6 30.5 55.2 54.8 NM_000119 2166 0.810 55.9 58.2 43.8 65.8 49.7 NM_001395 1155 0.832 66.8 66.0 48.6 85.7 36.5 NM_018018 1644 0.727 41.8 48.7 34.7 42.0 55.9 NM_000342 2736 0.830 59.5 63.9 37.7 76.8 41.6 NM_017888 1740 0.823 55.9 56.4 46.7 64.5 47.5 NM_031862 2901 0.773 49.0 58.9 39.0 49.0 53.5 NM_031858 2901 0.773 49.0 58.9 39.0 49.0 53.5 NM_006438 834 0.788 46.9 53.6 38.5 48.6 58.5 NM_005899 2901 0.773 49.0 58.9 39.0 49.0 53.5 NM_003725 954 0.798 50.4 51.6 40.3 59.4 52.1 NM_000934 1476 0.838 61.5 62.8 40.9 80.9 38.9 NM_000128 1878 0.771 45.9 44.9 44.2 48.6 55.7 NM_001086 1200 0.716 41.0 51.0 35.3 36.8 49.1 NM_006744 606 0.850 59.6 55.4 41.1 82.2 42.0 NM_000715 1794 0.772 45.2 47.8 47.8 39.8 52.4 NM_138933 1785 0.758 46.7 55.5 43.4 41.2 52.4 NM_138932 1785 0.756 46.9 56.1 43.0 41.5 53.2 NM_014576 1761 0.758 47.1 56.2 43.4 41.7 53.1 NM_002864 4449 0.764 47.7 53.2 39.0 50.7 53.2 NM_000772 1473 0.811 46.3 49.7 36.3 53.0 52.2 NM_005950 186 0.913 61.8 30.6 72.6 82.3 34.6 NM_000767 1476 0.806 53.6 57.7 36.4 66.7 49.3 NM_018029 819 0.735 42.7 46.9 42.1 39.2 53.0 NM_017614 1092 0.792 52.1 58.5 44.0 53.8 51.7 NM_001063 2097 0.795 51.1 53.9 41.6 57.8 54.5 NM_005951 186 0.926 62.4 32.3 72.6 82.3 32.7 NM_016327 1155 0.815 55.7 56.9 41.6 68.6 46.9 NM_006215 1284 0.821 52.9 52.8 34.6 71.3 46.5 NM_000668 1128 0.755 49.4 54.8 43.1 50.3 59.6 NM_153320 1647 0.831 61.3 65.0 47.0 71.9 44.2 NM_006672 1641 0.831 61.3 65.1 47.0 71.8 44.2 NM_005123 1419 0.744 42.6 51.0 35.5 41.2 55.2 NM_001159 4017 0.766 47.2 53.2 39.6 48.9 55.3 NM_182908 903 0.813 60.1 58.5 51.2 70.8 43.6 NM_005794 843 0.828 59.5 60.1 44.5 74.0 42.3 NM_000324 1230 0.743 46.7 51.0 39.3 49.8 54.1 NM_001308 1377 0.813 55.2 59.3 37.9 68.4 49.5 NM_004188 993 0.878 61.8 55.9 47.1 82.5 37.5 NM_001645 252 0.807 53.6 56.0 35.7 69.0 48.5 NM_153187 1521 0.802 57.4 56.2 44.0 72.0 46.6 NM_003057 1665 0.790 57.2 55.1 42.3 74.1 45.7 NM_000940 1065 0.759 44.5 54.6 32.1 46.8 55.4 NM_001713 1221 0.803 51.1 58.0 41.8 53.6 52.0 NM_006467 672 0.789 38.5 54.0 33.0 28.6 40.9 NM_013391 2601 0.737 45.9 56.5 40.0 41.3 54.4 NM_005332 429 0.846 65.0 57.3 43.4 94.4 28.6 NM_001003938 426 0.761 66.7 72.5 38.0 89.4 34.6 NM_052972 1044 0.815 61.0 66.1 41.7 75.3 43.1 NM_020980 888 0.757 48.9 54.7 42.2 49.7 52.5 NM_153609 2436 0.841 63.1 61.5 45.6 82.4 38.6 NM_000777 1509 0.765 44.0 49.1 35.8 47.1 56.1 NM_012224 3777 0.728 39.0 53.2 35.3 28.5 45.5 NM_000392 4638 0.779 47.4 49.4 36.2 56.8 53.6 NM_003227 2406 0.826 62.9 66.2 44.5 78.1 40.9 NM_002089 324 0.808 60.8 61.1 46.3 75.0 39.8 NM_000187 1338 0.800 48.8 50.7 41.5 54.3 55.5 NM_170771 1302 0.817 55.1 53.7 45.4 66.1 48.0 NM_022568 1464 0.812 53.6 52.3 44.9 63.7 48.7 NM_205845 972 0.795 47.6 56.2 33.3 53.4 54.1 NM_001354 972 0.795 47.6 56.2 33.3 53.4 54.1 NM_001353 972 0.799 47.5 55.6 34.3 52.8 54.6 NM_000606 609 0.824 64.0 69.5 45.8 76.8 40.9 NM_000029 1458 0.832 58.7 63.0 40.3 72.8 43.1 NM_001472 351 0.759 54.7 73.5 52.1 38.5 61.0 NM_001468 420 0.762 52.6 66.4 50.0 41.4 58.1 NM_021969 774 0.800 62.9 66.7 50.0 72.1 42.9 NM_001085 1272 0.827 52.5 53.3 34.7 69.6 46.1 NM_016527 1056 0.761 48.7 53.4 42.0 50.6 56.8 NM_001005783 1056 0.761 48.7 53.4 42.0 50.6 56.8 NM_152311 681 0.744 45.8 39.6 40.5 57.3 54.8 NM_004750 1269 0.827 66.6 62.9 52.5 84.4 36.7 NM_005836 414 0.715 44.9 52.2 43.5 39.1 55.2 NM_006169 795 0.814 53.6 54.7 38.1 67.9 48.2 NM_033013 1194 0.876 56.5 55.3 39.2 75.1 42.0 NM_022002 1422 0.866 56.8 55.9 41.6 73.0 44.0 NM_012254 2073 0.811 63.1 67.3 46.6 75.5 43.0 NM_003889 1305 0.873 56.8 55.6 40.2 74.5 42.9 NM_001082 1563 0.825 57.8 60.1 40.1 73.3 45.6 NM_000236 1500 0.791 52.4 51.6 41.4 64.2 51.3 NM_006488 897 0.864 59.8 61.2 42.1 75.9 44.2 NM_000221 897 0.843 58.8 61.5 41.5 73.2 46.0 NM_178850 1254 0.858 59.6 57.7 40.9 80.1 41.1 NM_178849 1395 0.859 59.6 58.1 40.2 80.4 40.6 NM_000457 1425 0.859 59.9 58.5 41.1 80.0 40.8 NM_007293 5235 0.828 58.4 61.1 43.2 70.9 46.6 NM_001002029 5235 0.827 58.5 61.1 43.4 70.8 46.6 NM_194431 444 0.828 53.2 50.7 41.9 66.9 55.6 NM_002937 444 0.828 53.2 50.7 41.9 66.9 55.6 NM_001145 444 0.821 51.6 50.0 44.6 60.1 51.6 NM_001966 2172 0.737 47.6 55.7 43.2 43.8 55.8 NM_002993 345 0.709 59.1 60.9 48.7 67.8 54.7 NM_000775 1509 0.793 49.2 51.7 37.6 58.3 54.4 NM_001710 2295 0.804 52.0 54.4 41.0 60.7 53.2 NM_001461 1602 0.782 45.1 49.3 37.6 48.3 51.8 NM_183009 3444 0.722 41.3 55.9 36.1 31.9 48.9 NM_015496 5439 0.727 41.9 54.7 39.3 31.9 48.9 NM_181871 1632 0.817 61.5 66.7 45.2 72.6 43.5 NM_000298 1725 0.814 61.0 65.6 45.4 72.0 44.0 NM_201648 891 0.781 45.9 50.2 35.4 52.2 59.7 NM_005838 492 0.780 43.5 50.0 32.3 48.2 59.3 NM_007127 2484 0.834 56.7 58.8 38.4 72.8 45.6 NM_182983 1254 0.816 63.6 62.9 51.4 76.6 42.9 NM_002151 1254 0.816 63.6 62.9 51.4 76.6 42.9 NM_016518 1173 0.809 54.0 58.1 40.2 63.9 49.8 NM_004132 1683 0.821 51.9 50.3 43.5 62.0 53.1 NM_000185 1500 0.797 49.5 50.2 32.0 66.4 53.0 NM_003855 1626 0.735 38.6 43.7 34.1 37.8 50.1 NM_024945 1878 0.709 36.0 46.5 34.3 27.2 44.4 NM_021977 1671 0.753 54.1 55.5 45.8 61.0 53.6 NM_000576 810 0.816 48.9 53.7 31.1 61.9 46.9 NM_139208 558 0.858 65.2 60.2 48.4 87.1 35.0 NM_006610 2061 0.786 52.5 54.0 46.9 56.5 54.3 NM_033127 3183 0.798 55.3 60.6 48.7 56.5 52.6 NM_198086 366 0.852 53.6 53.3 41.8 65.6 49.8 NM_032876 1617 0.803 63.9 64.0 57.3 70.3 48.4 NM_001185 897 0.848 54.5 59.2 36.5 67.9 45.2 NM_198503 3408 0.741 40.7 46.3 37.4 38.3 51.9 NM_001482 1272 0.796 48.2 51.7 43.2 49.8 55.1 NM_000253 2685 0.752 44.8 49.9 37.1 47.5 55.3 NM_004273 1440 0.857 64.5 63.5 40.8 89.2 33.4 NM_205860 1626 0.753 47.7 54.8 36.7 51.5 55.1 NM_003822 1488 0.758 46.0 52.4 35.5 50.2 54.6 NM_052831 1371 0.693 44.4 52.5 42.2 38.5 54.3 NM_206821 3372 0.790 45.7 52.4 38.7 45.9 51.9 NM_206820 3426 0.790 45.7 52.6 38.9 45.6 51.8 NM_206819 3447 0.790 45.9 52.7 39.1 46.0 52.0 NM_002465 3516 0.790 45.9 52.9 38.9 46.0 52.0 NM_198400 3744 0.752 41.4 46.6 43.1 34.5 48.8 NM_006154 2703 0.751 42.2 51.5 38.7 36.3 48.9 NM_000064 2703 0.751 42.2 51.5 38.7 36.3 48.9 NM_213653 1281 0.763 58.0 64.4 52.9 56.7 52.4 NM_213652 603 0.762 51.7 63.2 44.3 47.8 51.4 NM_202004 603 0.762 51.7 63.2 44.3 47.8 51.4 NM_178507 822 0.847 66.2 69.3 42.0 87.2 35.0 NM_145277 942 0.776 56.1 63.7 48.4 56.1 53.0 NM_006229 1404 0.820 50.4 51.3 41.5 58.3 50.3 NM_013261 2397 0.786 47.1 48.9 45.2 47.3 54.5 NM_032383 3015 0.753 44.3 51.5 35.5 45.9 55.2 NM_024106 1665 0.761 43.2 47.0 42.2 40.4 48.3 NM_014353 771 0.831 63.0 61.5 45.9 81.7 39.4 NM_000032 1764 0.816 55.2 59.4 41.5 64.6 47.8 NM_031900 1545 0.766 49.1 55.5 41.6 50.3 55.7 NM_012083 702 0.733 76.2 81.6 60.7 86.3 37.0 NM_001001872 2325 0.757 48.3 57.0 43.7 44.0 51.5 NM_003739 972 0.768 46.5 54.0 34.9 50.6 56.5 NM_197978 1455 0.724 39.9 57.3 35.3 27.0 40.0 NM_148923 405 0.811 50.1 52.6 37.8 60.0 60.0 NM_018437 1455 0.724 39.9 57.3 35.3 27.0 40.0 NM_001914 297 0.822 49.8 57.6 32.3 59.6 57.5 NM_004959 1386 0.880 64.1 65.6 40.0 86.8 33.2 NM_000624 1221 0.823 55.1 53.6 35.9 75.9 41.2 NM_001266 1701 0.798 52.7 56.8 40.7 60.7 53.5 NM_005438 816 0.824 63.6 64.7 55.9 70.2 42.0 NM_001466 1698 0.812 65.1 57.8 46.6 90.8 31.2 NM_001862 390 0.792 60.0 62.3 53.8 63.8 49.0 NM_080283 4875 0.749 42.3 48.1 35.0 43.6 52.6 NM_024773 1251 0.823 58.0 59.7 39.6 74.6 47.0 NM_004944 918 0.823 48.8 45.8 34.3 66.3 48.3 NM_007157 2412 0.794 60.4 61.3 52.5 67.5 48.3 NM_000538 819 0.726 60.1 63.4 51.6 65.2 51.3 NM_000505 1848 0.808 65.8 64.3 52.8 80.4 40.4 NM_000092 5073 0.759 58.7 73.2 64.8 38.3 52.2 NM_152780 2199 0.792 51.1 60.3 43.0 50.1 51.2 NM_000252 1812 0.745 41.2 47.2 37.7 38.6 53.9 NM_153742 1086 0.731 46.0 55.8 40.9 41.4 56.0 NM_001902 1218 0.739 45.7 55.2 39.7 42.4 55.2 NM_031481 948 0.797 57.4 57.6 45.3 69.3 47.8 NM_016356 1431 0.763 48.3 58.9 37.9 48.0 57.0 NM_006137 723 0.806 66.0 63.9 53.5 80.5 39.7 NM_000421 1755 0.809 55.3 58.8 52.8 54.4 48.5 NM_032049 1080 0.745 39.8 41.1 35.0 43.3 58.0 NM_031850 1080 0.745 39.8 41.1 35.0 43.3 58.0 NM_009585 1080 0.745 39.8 41.1 35.0 43.3 58.0 NM_004835 1080 0.745 39.8 41.1 35.0 43.3 58.0 NM_000685 1080 0.745 39.8 41.1 35.0 43.3 58.0 NM_138924 810 0.808 63.2 63.3 49.3 77.0 43.0 NM_000156 711 0.826 64.8 60.3 46.4 87.8 35.7 NM_031938 1740 0.778 44.8 52.1 38.3 44.1 52.0 NM_017634 1170 0.759 43.2 52.1 39.2 38.5 53.3 NM_000846 669 0.795 45.0 51.1 29.6 54.3 53.5 NM_024560 2061 0.736 48.0 55.5 44.5 44.0 56.9 NM_152924 1278 0.832 53.0 54.0 36.9 68.1 49.3 NM_007011 1278 0.832 53.0 54.0 36.9 68.1 49.3 NM_001889 990 0.713 42.9 55.2 40.9 32.7 47.7 NM_020686 1503 0.847 54.8 54.1 38.5 71.7 44.7 NM_000663 1503 0.847 54.8 54.1 38.5 71.7 44.7 NM_033304 1368 0.806 56.6 49.1 43.9 76.8 44.3 NM_033303 1428 0.804 58.2 50.6 46.2 77.7 43.3 NM_033302 1290 0.804 57.7 50.5 44.2 78.4 43.1 NM_004951 1086 0.732 41.3 42.0 35.9 45.9 55.9 NM_004617 609 0.798 52.5 50.7 43.8 63.1 48.8 NM_000680 1401 0.801 57.2 50.3 43.5 77.7 43.8 NM_001609 1299 0.733 42.6 49.9 39.7 38.3 52.6 NM_000014 4425 0.770 49.3 55.4 38.6 53.9 55.2 NM_032578 3963 0.794 50.2 54.1 46.7 49.8 54.4 NM_001657 759 0.725 43.6 51.4 41.5 37.9 55.9 NM_022129 867 0.740 49.1 58.5 41.2 47.8 57.0 NM_024411 765 0.838 57.1 56.9 43.5 71.0 47.9 NM_014926 2934 0.762 48.1 54.2 40.8 49.2 55.6 NM_005806 972 0.743 70.6 65.4 61.1 85.2 32.5 NM_020882 3855 0.825 66.5 67.7 54.4 77.4 40.4 NM_006593 2049 0.789 61.1 56.8 49.6 76.7 42.1 NM_033207 426 0.753 49.5 51.4 49.3 47.9 52.3 NM_006032 1674 0.851 59.1 58.4 43.4 75.6 41.4 NM_021817 1023 0.816 68.4 66.6 53.7 85.0 38.5 NM_052953 780 0.785 45.6 48.8 36.2 51.9 52.2 NM_052910 2091 0.797 51.8 50.8 37.3 67.3 49.4 NM_206814 396 0.731 53.0 59.1 38.6 61.4 46.8 NM_206812 627 0.774 53.3 61.7 41.1 56.9 49.2 NM_206811 690 0.769 53.0 62.6 40.0 56.5 50.6 NM_206810 642 0.775 53.6 62.6 40.2 57.9 49.3 NM_206809 744 0.765 52.8 60.5 40.7 57.3 51.4 NM_002433 759 0.766 53.1 61.3 39.9 58.1 51.4 NM_001008229 621 0.785 53.8 61.8 41.1 58.5 49.4 NM_001008228 675 0.769 52.7 61.8 40.9 55.6 50.3 NM_005954 207 0.888 61.4 42.0 68.1 73.9 36.2 NM_080600 1749 0.850 63.9 61.2 44.6 85.8 36.3 NM_002361 1881 0.847 64.0 61.7 44.8 85.5 36.5 NM_022728 1014 0.800 47.5 48.5 41.1 53.0 55.7 NM_014379 1503 0.802 54.4 52.5 42.9 67.9 49.6 NM_052874 867 0.854 54.1 56.1 30.8 75.4 42.7 NM_004767 1446 0.869 62.1 56.6 47.5 82.2 36.1 NM_175885 1281 0.754 73.0 72.8 61.1 85.0 41.0 NM_003259 2775 0.776 68.4 70.1 58.2 76.9 42.5 NM_022561 369 0.855 57.5 54.5 40.7 77.2 44.8 NM_022560 534 0.825 57.9 56.7 37.1 79.8 41.2 NM_022559 609 0.825 57.1 54.7 38.9 77.8 42.0 NM_000515 654 0.829 56.1 54.6 37.6 76.1 42.7 NM_004386 3966 0.820 61.6 64.0 53.1 67.9 47.9 NM_002055 1299 0.863 61.7 67.4 37.4 80.1 40.0 NM_005291 1104 0.852 60.8 56.0 42.9 83.4 36.8 NM_021026 954 0.805 51.9 52.2 44.0 59.4 54.9 NM_005297 1269 0.824 60.4 52.5 49.2 79.7 41.0 NM_198406 1035 0.816 63.2 61.7 49.0 78.8 42.3 NM_024897 1056 0.834 63.2 61.1 56.5 71.9 45.6 NM_207645 594 0.795 65.2 59.6 59.6 76.3 44.4 NM_021165 2352 0.851 56.2 54.6 43.1 70.8 46.1 NM_138983 816 0.802 74.5 72.4 57.7 93.4 31.7 NM_152479 720 0.790 69.7 70.4 55.0 83.8 39.1 NM_033345 597 0.802 50.9 49.2 42.2 61.3 54.9 NM_022006 243 0.843 56.4 46.9 50.6 71.6 38.6 NM_012109 1029 0.836 64.4 63.6 47.2 82.5 38.5 NM_014587 1341 0.823 72.2 69.4 55.7 91.5 30.8 NM_080741 1491 0.846 69.8 68.4 59.4 81.5 35.8 NM_206857 1071 0.804 59.4 63.0 42.6 72.5 44.2 NM_206852 627 0.812 51.7 54.5 32.5 67.9 45.9 NM_021136 2331 0.791 57.8 62.0 46.2 65.1 50.2 NM_000810 1389 0.803 51.0 43.0 41.3 68.7 50.2 NM_000806 1371 0.752 44.8 47.3 42.2 44.9 52.6 NM_016540 1272 0.832 55.0 49.5 38.9 76.4 43.0 NM_020711 855 0.780 42.0 53.3 33.7 38.9 49.2 NM_002545 1038 0.789 52.4 52.0 43.1 62.1 53.9 NM_001012393 1017 0.787 52.1 51.3 43.7 61.4 55.8 NM_001009959 894 0.778 42.3 53.4 33.9 39.6 50.0 NM_032289 2316 0.839 59.8 61.7 44.3 73.3 44.1 NM_002236 1485 0.857 63.3 57.6 39.0 93.3 31.6 NM_006539 948 0.805 52.0 46.2 46.5 63.3 49.5 NM_182935 246 0.879 50.8 32.9 41.5 78.0 33.9 NM_173798 1209 0.795 52.3 57.1 41.9 57.8 52.1 NM_014690 999 0.814 57.8 60.1 49.8 63.4 49.7 NM_032781 1698 0.838 60.3 61.3 43.3 76.3 43.4 NM_015980 516 0.825 55.2 53.5 41.3 70.9 52.5 NM_177400 834 0.762 71.9 68.7 51.4 95.7 30.0 NM_032949 2922 0.794 68.1 71.3 51.2 81.7 38.7 NM_002590 3213 0.792 69.0 72.1 52.8 82.0 38.8 NM_171825 1437 0.861 57.7 58.0 39.7 75.4 40.4 NM_015981 1470 0.860 57.3 57.1 39.8 74.9 40.9 NM_014279 1404 0.837 55.4 51.5 36.3 78.4 44.0 NM_006334 408 0.843 56.4 56.6 36.8 75.7 46.9 NM_012344 1233 0.795 65.3 63.7 47.7 84.4 38.6 NM_130811 621 0.789 49.8 58.9 34.3 56.0 53.0 NM_003081 621 0.787 49.0 58.5 33.8 54.6 47.3 NM_001118 1407 0.829 53.2 50.5 39.2 69.9 46.9 NM_030795 651 0.843 53.5 54.8 34.1 71.4 45.0 NM_182847 1944 0.822 64.4 65.7 51.5 75.8 42.7 NM_153442 1014 0.799 65.5 60.1 45.3 91.1 34.0 NM_018674 2001 0.824 64.0 65.2 51.3 75.4 42.8 NM_015912 4221 0.779 49.6 55.1 40.2 53.6 54.0 NM_001010852 984 0.793 48.3 55.5 32.6 56.7 55.6 NM_017435 2139 0.735 40.7 43.3 41.8 36.9 47.6 NM_014759 993 0.879 60.8 54.4 39.9 88.2 32.3 NM_138460 471 0.830 58.4 58.0 40.8 76.4 42.1 NM_006365 471 0.763 52.9 49.7 51.0 58.0 53.4 NM_201592 804 0.797 47.3 46.6 38.8 56.3 55.0 NM_201591 837 0.796 47.0 47.3 38.0 55.6 54.3 NM_005277 837 0.796 47.0 47.3 38.0 55.6 54.3 NM_173536 1398 0.755 38.9 41.8 38.4 36.5 50.0 NM_152868 1338 0.842 64.5 61.2 41.9 90.4 32.7 NM_004981 1338 0.842 64.5 61.2 41.9 90.4 32.7 NM_002347 423 0.821 62.6 56.0 52.5 79.4 40.9 NM_004065 789 0.828 44.1 45.2 36.9 50.2 34.5 NM_198427 2016 0.800 62.0 69.8 51.8 64.4 47.3 NM_021948 2736 0.817 62.5 68.2 51.2 68.0 45.7 NM_152722 1251 0.822 61.2 58.0 48.2 77.5 43.2 NM_006176 237 0.818 70.9 69.6 60.8 82.3 40.8 NM_002677 399 0.800 43.1 39.8 37.6 51.9 49.3 NM_021808 714 0.890 61.9 56.3 44.1 85.3 34.9 NM_005169 855 0.769 71.2 67.7 59.3 86.7 37.8 +NM_175834 1608 0.859 59.8 59.1 43.8 76.3 41.0 +NM_033199 339 0.816 65.2 62.8 57.5 75.2 38.3 +NM_016180 1593 0.797 52.7 54.2 41.4 62.5 50.9 +NM_001012509 1383 0.797 51.6 52.5 41.0 61.2 52.4 +NM_021013 1311 0.901 59.0 55.1 39.4 82.4 35.5 +NM_152310 813 0.825 50.8 43.2 34.3 74.9 43.8 +NM_139317 897 0.863 66.7 68.6 54.2 77.3 40.6 +NM_022161 843 0.873 66.4 68.0 53.4 77.9 39.5 +NM_006928 1986 0.787 55.7 59.5 50.8 56.8 50.7 +NM_152891 843 0.795 70.5 73.3 59.1 79.0 40.4 +NM_130467 393 0.728 50.9 70.2 45.8 36.6 47.9 +NM_005511 357 0.796 48.2 55.5 47.1 42.0 52.8 +NM_000372 1590 0.790 47.6 49.4 42.5 50.9 56.2 +NM_016249 1122 0.797 50.9 55.3 41.7 55.6 53.1 +NM_006121 1935 0.800 54.6 56.4 51.6 55.8 48.7 +NM_198510 3942 0.807 55.1 57.5 47.1 60.6 49.3 +NM_005462 3429 0.811 51.9 51.4 50.8 53.3 43.5 +NM_175698 567 0.812 48.9 54.5 38.1 54.0 51.7 +NM_003147 672 0.802 49.0 50.9 44.2 51.8 59.8 +NM_024114 675 0.801 48.9 44.0 40.4 62.2 46.8 +NM_002420 4812 0.796 48.8 52.7 35.3 58.4 53.6 +NM_178559 2439 0.730 42.6 51.0 37.6 39.1 53.4 +NM_006941 1401 0.841 66.7 65.3 51.2 83.5 37.6 +NM_005367 945 0.822 56.1 61.6 40.6 66.0 48.8 +NM_002699 1356 0.740 74.3 76.8 56.6 89.6 31.6 +NM_001922 1560 0.802 49.5 51.7 43.7 53.1 54.6 +NM_021048 1110 0.794 51.3 54.6 44.1 55.1 48.4 +NM_001011543 1110 0.794 51.3 54.6 44.1 55.1 48.4 +NM_138814 1290 0.825 62.4 60.9 46.0 80.2 41.1 +NM_152491 1509 0.798 51.6 53.9 38.8 62.2 50.5 +NM_005635 567 0.835 45.0 47.1 35.4 52.4 53.4 +NM_001279 660 0.825 58.3 54.5 43.2 77.3 42.5 +NM_177415 1044 0.791 52.3 55.5 45.7 55.7 54.1 +NM_177404 1044 0.791 52.3 55.5 45.7 55.7 54.1 +NM_006982 981 0.781 49.4 50.2 44.0 54.1 59.7 +NM_004694 1572 0.749 47.1 50.2 40.5 50.6 56.7 +NM_002363 1044 0.791 52.3 55.5 45.7 55.7 54.1 +NM_000273 1215 0.794 57.3 55.3 48.9 67.7 51.0 +NM_005557 1422 0.872 61.3 59.7 45.6 78.5 37.1 +NM_016556 654 0.816 52.4 56.9 33.5 67.0 49.5 +NM_013290 618 0.816 52.6 57.3 32.5 68.0 49.2 +NM_005185 450 0.902 63.3 64.0 34.7 91.3 27.5 +NM_002460 1356 0.832 57.7 58.4 42.7 72.1 46.1 +NM_181461 1212 0.805 57.7 55.2 49.5 68.3 48.8 +NM_181460 1224 0.804 57.4 54.9 49.3 67.9 49.5 +NM_181459 1518 0.797 56.8 55.5 48.6 66.2 51.2 +NM_181458 1455 0.798 57.4 55.7 49.7 66.8 50.8 +NM_181457 1440 0.800 57.5 55.2 50.2 67.1 50.6 +NM_013942 621 0.826 60.5 57.5 44.9 79.2 42.0 +NM_000438 648 0.825 61.4 56.5 48.6 79.2 41.9 +NM_000166 852 0.830 57.7 56.0 41.2 76.1 42.6 +NM_172220 516 0.839 64.3 69.2 44.8 79.1 38.0 +NM_172219 615 0.858 65.2 68.8 45.9 81.0 36.1 +NM_000759 624 0.858 65.1 68.8 45.7 80.8 36.0 diff --git a/Scripts/tabla_cai_late_proteins.txt b/Scripts/tabla_cai_late_proteins.txt new file mode 100644 index 0000000..8f2175b --- /dev/null +++ b/Scripts/tabla_cai_late_proteins.txt @@ -0,0 +1,18 @@ +Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc +pol 3597 0.760 60.9 63.2 46.1 73.4 43.6 +pTP 2016 0.772 62.9 66.2 45.2 77.2 41.3 +52K 1248 0.798 63.3 70.7 43.3 76.0 40.8 +pIIIa 1758 0.764 62.5 64.2 45.4 78.0 42.7 +III 1716 0.804 58.7 57.0 44.4 74.8 42.1 +pVII 597 0.767 70.4 68.8 65.3 76.9 41.7 +V 1107 0.759 62.3 67.2 49.6 70.2 44.5 +X 243 0.734 70.0 71.6 61.7 76.5 39.8 +pVI 753 0.773 61.1 62.2 51.8 69.3 41.5 +hexon 2859 0.767 49.0 51.6 38.7 56.7 52.4 +protease 615 0.788 54.8 52.2 45.4 66.8 42.8 +DBP(reversa_complementaria) 1590 0.769 59.7 60.8 44.3 74.2 42.1 +100K 2424 0.751 58.5 65.2 42.6 67.6 46.7 +33K 690 0.708 59.4 62.6 53.0 62.6 49.1 +22K 591 0.758 61.9 61.9 51.8 72.1 49.8 +pVIII 684 0.716 57.3 59.6 51.8 60.5 52.5 +fiber 1746 0.702 44.2 49.7 45.5 37.3 46.6 diff --git a/Scripts/tabla_cai_viral_proteins.txt b/Scripts/tabla_cai_viral_proteins.txt new file mode 100644 index 0000000..a192cef --- /dev/null +++ b/Scripts/tabla_cai_viral_proteins.txt @@ -0,0 +1,37 @@ +Name Length CAI %G+C %G+C(1) %G+C(2) %G+C(3) Nc +E1A 870 0.760 54.8 64.1 46.9 53.4 51.9 +E1B19K 531 0.789 52.5 54.8 41.8 61.0 52.8 +E1B55K 1491 0.798 52.6 52.7 45.5 59.6 48.5 +IX 423 0.783 57.7 55.3 56.7 61.0 49.4 +IVa2 1350 0.758 56.3 61.3 41.8 65.8 50.0 +pol 3597 0.760 60.9 63.2 46.1 73.4 43.6 +pTP 2016 0.772 62.9 66.2 45.2 77.2 41.3 +52K 1248 0.798 63.3 70.7 43.3 76.0 40.8 +pIIIa 1758 0.764 62.5 64.2 45.4 78.0 42.7 +III 1716 0.804 58.7 57.0 44.4 74.8 42.1 +pVII 597 0.767 70.4 68.8 65.3 76.9 41.7 +V 1107 0.759 62.3 67.2 49.6 70.2 44.5 +X 243 0.734 70.0 71.6 61.7 76.5 39.8 +pVI 753 0.773 61.1 62.2 51.8 69.3 41.5 +hexon 2859 0.767 49.0 51.6 38.7 56.7 52.4 +protease 615 0.788 54.8 52.2 45.4 66.8 42.8 +DBP(reversa_complementaria) 1590 0.769 59.7 60.8 44.3 74.2 42.1 +100K 2424 0.751 58.5 65.2 42.6 67.6 46.7 +33K 690 0.708 59.4 62.6 53.0 62.6 49.1 +22K 591 0.758 61.9 61.9 51.8 72.1 49.8 +pVIII 684 0.716 57.3 59.6 51.8 60.5 52.5 +E3_12.5K 324 0.783 54.0 63.9 40.7 57.4 60.1 +E3_CR1-alpha0 192 0.691 44.3 42.2 45.3 45.3 40.4 +E3_gp19K 483 0.753 40.0 39.8 37.3 42.9 53.1 +10.5K 282 0.743 46.5 41.5 44.7 53.2 52.0 +E3_RID-alpha 276 0.704 46.7 48.9 38.0 53.3 61.0 +E3_RID-beta 399 0.739 46.1 45.1 48.1 45.1 58.5 +E3_14.7K 387 0.749 48.8 54.3 35.7 56.6 51.5 +U_exon(reversa_complementaria) 168 0.830 45.8 50.0 30.4 57.1 30.1 +fiber 1746 0.702 44.2 49.7 45.5 37.3 46.6 +E4_ORF6/7 453 0.755 51.7 53.6 49.7 51.7 52.9 +E4_34K_(reversa_complementaria) 885 0.805 53.4 50.5 45.4 64.4 46.9 +E4_ORF4_(reversa_complementaria) 345 0.714 54.5 55.7 49.6 58.3 60.6 +E4_ORF3_(reversa_complementaria) 351 0.771 45.0 56.4 29.9 48.7 47.4 +E4_ORFB_(reversa_complementaria) 393 0.698 48.3 60.3 35.1 49.6 55.6 +E4_ORF1_(reversa_complementaria) 387 0.708 47.3 60.5 36.4 45.0 43.0 diff --git a/example.fasta b/example.fasta new file mode 100644 index 0000000..1aa6ad3 --- /dev/null +++ b/example.fasta @@ -0,0 +1,36 @@ +>GFP (WT) +ATGAGTAAAGGAGAAGAACTTTTCACTGGAGTTGTCCCAATTCTTGTTGAATTAGATGGTGATGTTAATG * +GGCACAAATTCTCTGTCAGTGGAGAGGGTGAAGGTGATGCAACATACGGAAAACTTACCCTTAAATTTAT +TTGCACTACTGGAAAGCTACCTGTTCCATGGCCAACACTTGTCACTACTTTCTCTTATGGTGTTCAATGC +TTTTCAAGATACCCAGATCATATGAAACAGCATGACTTTTTCAAGAGTGCCATGCCCGAAGGTTATGTAC +AGGAAAGAACTATATTTTACAAAGATGACGGGAACTACAAATCACGTGCTGAAGTCAAGTTTGAAGGTGA +TACCCTCGTTAATAGAATTGAGTTAAAAGGTATTGATTTTAAAGAAGATGGAAACATTCTTGGACACAAA +ATGGAATACAACTATAACTCACACAATGTATACATCATGGCAGACAAACAAAAGAATGGAATCAAAGTTA +ACTTCAAAATTAGACACAACATTGAAGATGGAAGCGTTCAACTAGCAGACCATTATCAACAAAATACTCC +AATTGGCGATGGCCCTGTCCTTTTACCAGACAACCATTACCTGTCCACACAATCTGCCCTTTCCAAAGAT +CCCAACGAAAAGAGAGATCACATGATCCTTCTTGAGTTTGTAACAGCTGCTGGGATTACACATGGCATGG +ATGAACTATACAAATAA +>TOX (human protein) +ATGGACGTAAGATTTTATCCACCTCCAGCCCAGCCCGCCGCTGCGCCCGACGCTCCCTGTCTGGGACCTT +CTCCCTGCCTGGACCCCTACTATTGCAACAAGTTTGACGGTGAGAACATGTATATGAGCATGACAGAGCC +GAGCCAGGACTATGTGCCAGCCAGCCAGTCCTACCCTGGTCCAAGCCTGGAAAGTGAAGACTTCAACATT +CCACCAATTACTCCTCCTTCCCTCCCAGACCACTCGCTGGTGCACCTGAATGAAGTTGAGTCTGGTTACC +ATTCTCTGTGTCACCCCATGAACCATAATGGCCTGCTACCATTTCATCCACAAAACATGGACCTCCCTGA +AATCACAGTCTCCAATATGCTGGGCCAGGATGGAACACTGCTTTCTAATTCCATTTCTGTGATGCCAGAT +ATACGAAACCCAGAAGGAACTCAGTACAGTTCCCATCCTCAGATGGCAGCCATGAGACCAAGGGGCCAGC +CTGCAGACATCAGGCAGCAGCCAGGAATGATGCCACATGGCCAGCTGACTACCATTAACCAGTCACAGCT +AAGTGCTCAACTTGGTTTGAATATGGGAGGAAGCAATGTTCCCCACAACTCACCATCTCCACCTGGAAGC +AAGTCTGCAACTCCTTCACCATCCAGTTCAGTGCATGAAGATGAAGGCGATGATACCTCTAAGATCAATG +GTGGAGAGAAGCGGCCTGCCTCTGATATGGGGAAAAAACCAAAAACTCCCAAAAAGAAGAAGAAGAAGGA +TCCCAATGAGCCCCAGAAGCCTGTGTCTGCCTATGCGTTATTCTTTCGTGATACTCAGGCCGCCATCAAG +GGCCAAAATCCAAACGCTACCTTTGGCGAAGTCTCTAAAATTGTGGCTTCAATGTGGGACGGTTTAGGAG +AAGAGCAAAAACAGGTCTATAAAAAGAAAACCGAGGCTGCGAAGAAGGAGTACCTGAAGCAACTCGCAGC +ATACAGAGCCAGCCTTGTATCCAAGAGCTACAGTGAACCTGTTGACGTGAAGACATCTCAACCTCCTCAG +CTGATCAATTCGAAGCCGTCGGTGTTCCATGGGCCCAGCCAGGCCCACTCGGCCCTGTACCTAAGTTCCC +ACTATCACCAACAACCGGGAATGAATCCTCACCTAACTGCCATGCATCCTAGTCTCCCCAGGAACATAGC +CCCCAAGCCGAATAACCAAATGCCAGTGACTGTCTCTATAGCAAACATGGCTGTGTCCCCTCCTCCTCCC +CTCCAGATCAGCCCGCCTCTTCACCAGCATCTCAACATGCAGCAGCACCAGCCGCTCACCATGCAGCAGC +CCCTTGGGAACCAGCTCCCCATGCAGGTCCAGTCTGCCTTACACTCACCCACCATGCAGCAAGGATTTAC +TCTTCAACCCGACTATCAGACTATTATCAATCCTACATCTACAGCTGCACAAGTTGTCACCCAGGCAATG +GAGTATGTGCGTTCGGGGTGCAGAAATCCTCCCCCACAACCGGTGGACTGGAATAACGACTACTGCAGTA +GTGGGGGCATGCAGAGGGACAAAGCACTGTACCTTACTTGA \ No newline at end of file